Search results

Caper
[[Category:Software]][[Category:Data_Science]]

3 KB (425 words) - 14:43, 11 October 2023
Category:Simulation
[[Category:Software]] Hardware or software environment simulation.

16 members (0 subcategories, 0 files) - 18:44, 7 July 2017
PosiGene
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (358 words) - 21:22, 6 December 2019
Transrate
[[Category:Software]][[Category:Biology]][[Category:Assembly]] Transrate is software for de-novo transcriptome assembly quality analysis. It examines your assem

3 KB (316 words) - 16:54, 22 August 2022
SimNIBS
[[Category:Software]][[Category:Phylogenetics]] SimNIBS is a free and open source software package for the Simulation of Non-invasive Brain Stimulation. It allows for

3 KB (324 words) - 18:04, 28 August 2020
Jasmine
[[Category:Software]][[Category:Phylogenetics]]

3 KB (317 words) - 19:09, 15 August 2022
Garfield
[[Category:Software]][[Category:Genomics]]

3 KB (342 words) - 22:51, 30 November 2022
MPFR
[[Category:Software]][[Category:Library]][[Category:Math]]

2 KB (302 words) - 21:22, 6 December 2019
Kraken
[[Category:Software]][[Category:Biology]][[Category:NGS]] |{{#vardefine:url|http://ccb.jhu.edu/software/kraken/}}

4 KB (483 words) - 19:28, 12 August 2022
LIBXSMM
[[Category:Software]][[Category:Library]][[Category:Compiler]][[Category:Math]]

2 KB (257 words) - 17:46, 15 August 2022
Pyweka
[[Category:Software]][[Category:Phylogenetics]]

2 KB (265 words) - 17:35, 1 June 2022
Popoolation
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (321 words) - 21:23, 6 December 2019
Seq-Gen
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] |{{#vardefine:url|http://tree.bio.ed.ac.uk/software/seqgen/}}

3 KB (351 words) - 17:58, 10 June 2022
MetaWRAP
[[Category:Software]][[Category:Phylogenetics]] ...lexible pipeline for genome-resolved metagenomic data analysis. If certain software wrapped into metaWRAP were integral to your investigation (e.g. Salmon, Max

3 KB (412 words) - 22:31, 8 September 2020
FineRADstructure
[[Category:Software]][[Category:Phylogenetics]]

3 KB (293 words) - 14:53, 5 January 2022
Ferret
[[Category:Software]][[Category: Geospatial]][[Category:Climate]][[Category:Visualization]][[Ca |{{#vardefine:exe|}} 

3 KB (359 words) - 20:26, 24 August 2022
OCOCO
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (284 words) - 21:22, 6 December 2019
ASPECT
[[Category:Software]][[Category:Library]]

2 KB (285 words) - 15:16, 3 June 2022
Rapidsai
[[Category:Software]][[Category:Data Science]] The RAPIDS suite of open source software libraries and APIs gives you the ability to execute end-to-end data science

3 KB (348 words) - 21:29, 21 August 2022
Boost
[[Category:Software]][[Category:Library]][[Category:Programming]][[Category:Compiler]]

3 KB (350 words) - 13:06, 15 August 2022
BEAR
[[Category:Software]][[Category:Biology]][[Category:genomics]]

2 KB (274 words) - 18:13, 12 August 2022
Tapir
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (275 words) - 16:40, 10 June 2022
Assemblytics
[[Category:Software]][[Category:Phylogenetics]]

2 KB (252 words) - 17:02, 29 September 2020
Ragout
[[Category:Software]][[Category:Genomics]]

3 KB (318 words) - 21:29, 21 August 2022
MGERT
[[Category:Software]][[Category:Phylogenetics]]

3 KB (305 words) - 14:20, 15 September 2020
Scipion
[[Category:Software]][[Category:Image Processing]] ...ts and developers. Scipion allows to execute workflows combining different software tools, while taking care of formats and conversions. Additionally, all step

2 KB (289 words) - 21:24, 6 December 2019
LCModel
[[Category:Software]] ...maintenance for LCModel. It's recommended that users install and run this software locally by following instructions posted at http://s-provencher.com/lcm-tes

4 KB (497 words) - 16:28, 15 December 2022
Brewery
[[Category:Software]][[Category:Phylogenetics]]

2 KB (245 words) - 17:40, 24 January 2020
Trimmomatic
[[Category:Software]][[Category:Biology]][[Category:NGS]]

4 KB (522 words) - 20:52, 12 August 2022
MinPath
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (317 words) - 21:22, 6 December 2019
HTMLDoc
[[Category:Software]][[Category:Documentation]][[Category:Web]]

2 KB (253 words) - 18:34, 15 August 2022
YAK
[[Category:Software]][[Category:Phylogenetics]]

2 KB (293 words) - 16:10, 10 March 2021
Rclone
[[Category:Software]][[Category:Web]]

6 KB (763 words) - 20:07, 30 October 2023
MNEtools
[[Category:Software]][[Category:Phylogenetics]]

2 KB (238 words) - 16:13, 6 June 2022
CLUMPP
[[Category:Software]][[Category:Biology]] You must have configuration files to be able to run this software. The example configuration file can be copied using the following command:

3 KB (351 words) - 18:33, 12 August 2022
Consulting
* Get priority help with software, hardware, coding, or architecture

2 KB (378 words) - 18:33, 13 June 2023
BlobTools
[[Category:Software]][[Category:Phylogenetics]]

2 KB (267 words) - 21:15, 6 December 2019
SNeP
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] SNeP is a piece of software written in C++ that performs historical Effective Population Size (Ne) traj

2 KB (278 words) - 16:23, 10 June 2022
QuartetScores
[[Category:Software]][[Category:Phylogenetics]]

2 KB (258 words) - 14:50, 27 April 2020
UShER
[[Category:Software]][[Category:Phylogenetics]]

3 KB (425 words) - 21:08, 13 January 2022
ALLPATHS-LG
[[Category:Software]][[Category:Biology]][[Category:NGS]] |{{#vardefine:url|http://www.broadinstitute.org/software/allpaths-lg/blog/}}

2 KB (299 words) - 12:36, 12 August 2022
RepeatAnalysis
[[Category:Software]][[Category:biology]][[Category:phylogenetics]]

2 KB (238 words) - 14:34, 26 August 2020
RDnaTools
[[Category:Software]][[Category:Phylogenetics]] ...Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol,

3 KB (361 words) - 21:24, 6 December 2019
BRIG
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (278 words) - 16:25, 10 June 2022
LRBinner
[[Category:Software]]

5 KB (527 words) - 14:45, 14 December 2022
VISPR
[[Category:Software]][[Category:Phylogenetics]]

2 KB (261 words) - 15:53, 21 June 2023
Prokka
[[Category:Software]][[Category:Biology]][[Category:Assembly]][[Category:Genomics]] |{{#vardefine:url|http://www.vicbioinformatics.com/software.prokka.shtml}}

2 KB (297 words) - 19:41, 21 August 2022
FastQTL
[[Category:Software]][[Category:Phylogenetics]]

3 KB (325 words) - 14:40, 22 July 2020
Scrappie
[[Category:Software]]

3 KB (416 words) - 13:43, 7 April 2021
SIGffRid
[[Category:Software]][[Category:Phylogenetics]]

2 KB (253 words) - 18:17, 1 June 2022
Leafaudio
[[Category:Software]][[Category:Audio]][[Category:Machine Learning]]

2 KB (288 words) - 19:49, 15 August 2022
AMOS
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:Assembly]] ...mbly infrastructure. In this sense, AMOS is both a design philosophy and a software system.

3 KB (344 words) - 12:41, 12 August 2022
MitoFinder
[[Category:Software]][[Category:Phylogenetics]]

2 KB (255 words) - 21:23, 6 December 2019
Roary
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

3 KB (308 words) - 17:13, 10 June 2022
GFF3toolkit
[[Category:Software]][[Category:Phylogenetics]]

3 KB (335 words) - 20:48, 23 May 2022
YASM
[[Category:Software]][[Category:Programming]]

2 KB (292 words) - 17:53, 22 August 2022
COMSOL
[[Category:Software]][[Category:Simulation]] COMSOL Multiphysics® is a general-purpose simulation software for modeling designs, devices, and processes in all fields of engineering,

3 KB (426 words) - 19:40, 20 February 2024
NPhase
[[Category:Software]]

2 KB (275 words) - 17:53, 15 August 2022
MOCCASIN
[[Category:Software]][[Category:Phylogenetics]]

2 KB (287 words) - 18:59, 31 May 2022
OPENACC
[[Category:Software]][[Category:Programming]]

2 KB (291 words) - 12:01, 26 August 2022
LS-DYNA
[[Category:Software]][[Category:Physics]]

3 KB (394 words) - 20:13, 15 August 2022
ASHS
[[Category:Software]][[Category:Biology]][[Category:imaging]] ASHS is a software package for automatic segmentation of hippocampal subfields in MRI scans. A

3 KB (353 words) - 20:32, 24 August 2022
PGDSpider
[[Category:Software]][[Category:Biology]][[Category:NGS]] |{{#vardefine:url|http://www.cmpg.unibe.ch/software/PGDSpider/}}

3 KB (387 words) - 19:04, 10 June 2022
CPAT
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (277 words) - 16:34, 10 June 2022
Openmc
[[Category:Software]]

2 KB (287 words) - 20:25, 21 February 2024
GAML
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (279 words) - 16:51, 15 August 2022
GCT
[[Category:Software]][[Category:File Management]][[Category:Utility]] The GCT is a nascent effort to provide community-based support for critical software packages for grid computing. The GCT is based on a fork of the Globus Toolk

2 KB (290 words) - 13:54, 21 October 2022
Kalign
[[Category:Software]]

2 KB (265 words) - 19:28, 12 August 2022
Example
[[Category:Software]] The software foobarbaz is a really wonderful tool that lets you tie your shoelaces remot

3 KB (370 words) - 02:39, 24 May 2023
HPL
[[Category:Software]][[Category:Programming]][[Category:Performance Analysis]]

2 KB (255 words) - 12:01, 26 August 2022
Category:Spectroscopy
[[Category:Biology]][[Category:Software]]

7 members (0 subcategories, 0 files) - 15:29, 23 August 2022
Fusion twas
[[Category:Software]][[Category:Phylogenetics]]

2 KB (257 words) - 19:27, 26 May 2022
Powerfit
[[Category:Software]][[Category:Physics]]

3 KB (318 words) - 21:24, 7 March 2023
YASRA
[[Category:Software]] [[Category:biology]][[Category:NGS]][[Category:sequencing]]

3 KB (304 words) - 20:56, 12 August 2022
REDItools2
[[Category:Software]][[Category:Phylogenetics]]

2 KB (237 words) - 18:05, 1 June 2022
Wub
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]] Tools and software library developed by the ONT Applications group

2 KB (250 words) - 17:46, 22 August 2022
FASTRAL-constrained
[[Category:Software]][[Category:Phylogenetics]]

2 KB (271 words) - 15:25, 15 August 2022
Category:Interface
[[Category:Software]]

2 members (2 subcategories, 0 files) - 18:02, 26 September 2022
MCR
[[Category:Software]][[Category:Math]][[Category:Language]] ...TLAB Runtime enable you to create and distribute numerical applications or software components quickly and securely.

2 KB (292 words) - 18:06, 3 June 2022
Lumpy
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (235 words) - 19:46, 12 August 2022
Workbench
[[Category:Software]][[Category:Fluid Dynamics]]

2 KB (286 words) - 15:34, 19 August 2022
TreeMix
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (356 words) - 17:56, 10 June 2022
Gapseq
[[Category:Software]][[Category:Chemistry]][[Category:Biology]]

2 KB (252 words) - 14:22, 11 October 2022
GRIDSS
[[Category:Software]][[Category:Phylogenetics]] GRIDSS is a module software suite containing tools useful for the detection of genomic rearrangements.

3 KB (388 words) - 21:20, 6 December 2019
MRIcroGL
[[Category:Software]][[Category:Biology]][[Category:Imaging]]

2 KB (294 words) - 20:33, 24 August 2022
ClinicaDL
[[Category:Software]][[Category:Biology]][[Category:imaging]][[Category:Machine Learning]] ...data with deep learning methods. ClinicaDL install includes the 'clinica' software platform for clinical research studies involving patients with neurological

3 KB (323 words) - 13:41, 15 August 2022
Wine
[[Category:Software]][[Category:Linux]][[Category:Utility]]

3 KB (367 words) - 17:43, 22 August 2022
Mega2
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (310 words) - 21:21, 6 December 2019
VTK
[[Category:Software]][[Category:Neuroscience]][[Category:Biology]][[Category:Imaging]] he Visualization Toolkit (VTK) is an open-source, freely available software system for 3D computer graphics, image processing and visualization. VTK co

3 KB (360 words) - 20:55, 12 August 2022
Nccl
[[Category:Software]][[Category:Programming]][[Category:Library]][[Category:GPU]]

3 KB (293 words) - 20:03, 21 August 2022
Protege
[[Category:Software]][[Category:Genomics]]

2 KB (232 words) - 20:19, 24 August 2022
Valouev
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (252 words) - 21:29, 6 December 2019
PRICE
[[Category:Software]][[Category:Biology]][[Category:NGS]] |{{#vardefine:url|http://derisilab.ucsf.edu/software/price/}}

2 KB (286 words) - 16:26, 10 June 2022
Cyvcf2
[[Category:Software]]

2 KB (260 words) - 14:47, 28 July 2023
RMATS-turbo
[[Category:Software]]

2 KB (292 words) - 18:14, 8 March 2022
EMC
[[Category:Software]][[Category:Simulation]]

2 KB (241 words) - 15:04, 15 August 2022
Apptainer
[[Category:Software]][[Category:Workflow Automation]] or even create a shell in the software environment provided by the container with

4 KB (609 words) - 16:30, 12 February 2024
Pyroms
[[Category:Software]][[Category:Geospatial]]

2 KB (287 words) - 20:27, 24 August 2022
Pymesh
[[Category:Software]]

2 KB (271 words) - 16:09, 9 March 2023
Mosdepth
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (265 words) - 21:23, 6 December 2019
MMSEQ
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

3 KB (387 words) - 20:50, 18 August 2022
Nextstrain
[[Category:Software]][[Category:Phylogenetics]]

3 KB (295 words) - 14:56, 2 March 2020
CONNECT
[[Category:Software]][[Category:Phylogenetics]]

2 KB (248 words) - 14:53, 24 November 2020
BppSuite
[[Category:Software]][[Category:Genomics]]

2 KB (248 words) - 15:37, 9 December 2022
SAMStat
[[Category:Software]][[Category:biology]][[Category:NGS]][[Category:sequencing]]

3 KB (429 words) - 20:34, 12 August 2022
UFRC Help and Documentation
| style="width: 7%; vertical-align: top" | [[Image:Software.png|frameless|upright=0.2]] ...padding-left: 10px" | <h1 style="border: 0; margin: 0 0 3px 0; padding: 0">SOFTWARE AND REFERENCE DATA</h1>

5 KB (656 words) - 14:10, 19 March 2024
REPdenovo
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (327 words) - 21:43, 21 August 2022
MGLTools
[[Category:Software]] These software tools are highly integrated and based on reusable software

3 KB (357 words) - 17:03, 6 June 2022
Wtdbg
[[Category:Software]][[Category:Phylogenetics]]

3 KB (310 words) - 17:44, 22 August 2022
RSEM
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]] RSEM is a software package for estimating gene and isoform expression levels from RNA-Seq data

3 KB (390 words) - 21:59, 21 August 2022
GHOST-MP
[[Category:Software]][[Category:Phylogenetics]]

2 KB (285 words) - 20:11, 7 May 2020
Nimare
[[Category:Software]]

3 KB (343 words) - 15:27, 15 August 2022
Blast2GO
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:exe|1}} 

6 KB (920 words) - 14:08, 16 March 2023
BIOMART
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

3 KB (310 words) - 18:16, 12 August 2022
HMM-FRAME
[[Category:Software]][[Category:Phylogenetics]]

2 KB (244 words) - 21:21, 6 December 2019
FSL
[[Category:Software]][[Category:Neuroscience]][[Category:Biology]][[Category:Imaging]]

3 KB (365 words) - 16:47, 17 January 2023
Bamsnap
[[Category:Software]][[Category:Phylogenetics]]

2 KB (248 words) - 16:14, 27 May 2022
NUPACK
[[Category:Software]][[Category:Phylogenetics]] NUPACK is a software suite for the analysis and design of nucleic acid structures, devices, and

2 KB (263 words) - 21:22, 6 December 2019
VEP
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]

2 KB (270 words) - 17:28, 22 August 2022
RagTag
[[Category:Software]][[Category:Phylogenetics]]

2 KB (263 words) - 15:27, 13 August 2020
LoRDEC
[[Category:Software]][[Category:Phylogenetics]]

2 KB (258 words) - 13:38, 22 April 2021
MITE-Hunter
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (250 words) - 15:05, 10 June 2022
Pipe-clip
[[Category:Software]][[Category:Biology]][[Category:NGS]]

2 KB (254 words) - 21:22, 6 December 2019
Mercurial
[[Category:Software]][[Category:Revision Control]]

2 KB (253 words) - 19:59, 10 June 2022
WoLFPSort
[[Category:Software]][[Category:Phylogenetics]]

3 KB (309 words) - 21:29, 6 December 2019
CONSEL
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (375 words) - 18:43, 10 June 2022
Aquamis
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

3 KB (348 words) - 22:07, 20 October 2023
MEGAN
[[Category:Software]][[Category:Biology]][[Category:NGS]] |{{#vardefine:url|http://ab.inf.uni-tuebingen.de/software/megan6/}}

3 KB (338 words) - 15:38, 15 April 2024
DeFusion
[[Category:Software]][[Category:Phylogenetics]]

2 KB (246 words) - 22:22, 26 August 2020
Trycycler
[[Category:Software]][[Category:Phylogenetics]]

3 KB (305 words) - 18:13, 22 July 2021
SOAPdenovo-Trans
[[Category:Software]][[Category:Biology]][[Category:NGS]]

2 KB (283 words) - 00:05, 22 August 2022
Gflags
[[Category:Software]][[Category:Web]][[Category:Library]]

2 KB (291 words) - 17:07, 15 August 2022
DiffReps
[[Category:Software]][[Category:Biology]]

4 KB (474 words) - 14:41, 15 August 2022
Moses
[[Category:Software]]

3 KB (381 words) - 15:15, 17 October 2022
FALCON fc large run cfg
[[Category:Software]]

2 KB (266 words) - 20:30, 2 August 2021
DSK
[[Category:Software]][[Category:Biology]][[Category:NGS]] DSK is a k-mer counting software, similar to Jellyfish. DSK can be executed on any machine (only 1 GB memory

3 KB (315 words) - 17:17, 10 June 2022
Tesseract
[[Category:Software]]

2 KB (271 words) - 17:29, 3 April 2024
GCTA
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:Variant Calling]] |{{#vardefine:url|http://cnsgenomics.com/software/gcta/index.html}}

3 KB (331 words) - 12:56, 15 August 2022
GSEA
[[Category:Software]][[Category:Biology]][[Category:Genomics]] ...://www.pnas.org/content/102/43/15545.abstract To cite your use of the GSEA software, a joint project of UC San Diego and Broad Institute, please reference Subr

2 KB (298 words) - 17:27, 15 August 2022
Category:Software
Or you can browse through the sub-categories or software package names in the table below. To add a documentation page for a new piece of software installed into /apps please go to [[Add New App Page]].

2,139 members (62 subcategories, 0 files) - 19:53, 20 February 2024
Resistify
[[Category:Software]]

2 KB (264 words) - 16:44, 6 February 2024
INLA
[[Category:Software]][[Category:statistics]][[Category:modeling]][[Category:Programming]]

2 KB (236 words) - 12:20, 26 August 2022
GapFiller
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

3 KB (331 words) - 16:52, 15 August 2022
SMR
[[Category:Software]] |{{#vardefine:url|https://cnsgenomics.com/software/smr/#Overview}}

3 KB (362 words) - 18:27, 19 August 2021
DealII
[[Category:Software]][[Category:Library]]

2 KB (250 words) - 19:56, 13 June 2022
WGS Assembler
[[Category:Software]][[Category:biology]][[Category:genomics]] Celera Assembler : scientific software for biological research. Celera Assembler is a de novo whole-genome shotgun

3 KB (359 words) - 20:56, 12 August 2022
Meraculous
[[Category:Software]][[Category:Biology]][[Category:NGS]]

3 KB (354 words) - 18:36, 10 June 2022
Mantis
[[Category:Software]][[Category:Phylogenetics]]

3 KB (368 words) - 17:20, 27 May 2022
TaxonKit
[[Category:Software]][[Category:Phylogenetics]]

2 KB (262 words) - 19:01, 13 December 2021
LAMMPS
[[Category:Software]][[Category:Molecular Dynamics]] |{{#vardefine:exe|1}} 

5 KB (731 words) - 20:30, 6 April 2024
METIS
[[Category:Software]][[Category:Utility]]

2 KB (247 words) - 19:40, 18 August 2022
VarScan
[[Category:Software]][[Category:Biology]][[Category:NGS]] ...nts a substantial informatics challenge. VarScan is a platform-independent software tool developed at the Genome Institute at Washington University to detect v

3 KB (324 words) - 20:54, 12 August 2022
NetCDF-F
[[Category:Software]][[Category:Data Science]] |{{#vardefine:url|https://www.unidata.ucar.edu/software/netcdf/}}

2 KB (269 words) - 16:36, 2 September 2022
Annotated SLURM Script
* Load the software you need

3 KB (502 words) - 14:13, 27 October 2023
Category:Workflow Automation
[[Category:Software]]

13 members (0 subcategories, 0 files) - 19:51, 22 August 2022
Ngsremix
[[Category:Software]]

2 KB (259 words) - 21:49, 28 February 2023
AnnoTALE
[[Category:Software]][[Category:Phylogenetics]]

3 KB (326 words) - 14:15, 17 September 2020
Freyja
[[Category:Software]][[Category:Phylogenetics]][[Category:Sequencing]][[Category:Biology]]

2 KB (289 words) - 16:49, 15 August 2022
JModelTest
[[Category:Software]][[Category:Genomics]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (431 words) - 19:27, 12 August 2022
Mugsy
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (298 words) - 21:22, 6 December 2019
ChartDirector
[[Category:Software]][[Category:Data Science]][[Category:Library]]

3 KB (397 words) - 13:26, 15 August 2022
AlphaMate
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] |{{#vardefine:url|https://alphagenes.roslin.ed.ac.uk/wp/software-2/alphamate/}}

3 KB (338 words) - 13:46, 9 May 2023
Viromescan
[[Category:Software]][[Category:Genomics]][[Category:Biology]]

2 KB (236 words) - 18:36, 24 March 2023
TGICL
[[Category:Software]][[Category:biology]][[Category:NGS]][[Category:sequencing]] |{{#vardefine:url|http://compbio.dfci.harvard.edu/tgi/software/}}

3 KB (340 words) - 20:47, 12 August 2022
Blast
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:exe|1}} 

3 KB (402 words) - 18:17, 12 August 2022
SpliceGrapher
[[Category:Software]][[Category:biology]][[Category:sequencing]]

3 KB (318 words) - 21:24, 6 December 2019
BayeScan
[[Category:Software]][[Category:Biology]][[Category:Variant Calling]] |{{#vardefine:url|http://cmpg.unibe.ch/software/BayeScan/index.html}}

3 KB (402 words) - 18:10, 12 August 2022
Minimap2
[[Category:Software]][[Category:genomics‏‎]][[Category:Biology]]

2 KB (260 words) - 13:31, 15 August 2022
AfterQC
[[Category:Software]][[Category:Phylogenetics]]

3 KB (341 words) - 21:19, 6 December 2019
Applications
[[Category:Software]]

1 KB (138 words) - 13:26, 27 September 2022
SOAPnuke
[[Category:Software]][[Category:Phylogenetics]]

2 KB (264 words) - 14:12, 6 April 2020
Meta-Marc
[[Category:Software]][[Category:Phylogenetics]] ...is not intended to be used as a final annotation or all-in-one tool; this software simply offers the user another view of complex metagenomic data. Users are

3 KB (336 words) - 14:51, 20 January 2021
ABySS
[[Category:Software]][[Category:Biology]][[Category:De Novo]] |{{#vardefine:url|http://www.bcgsc.ca/platform/bioinfo/software/abyss}}

2 KB (315 words) - 16:17, 19 August 2022
Pycoqc
[[Category:Software]] ...ive quality control for Oxford Nanopore Sequencing. Journal of Open Source Software, 4(34), 1236, https://doi.org/10.21105/joss.01236

3 KB (309 words) - 13:55, 21 October 2022
SMRT-SV
[[Category:Software]][[Category:Biology]][[Category:NGS]]

3 KB (340 words) - 00:03, 22 August 2022
ARPACK
[[Category:Software]][[Category:Math]] |{{#vardefine:url|http://www.caam.rice.edu/software/ARPACK/}}

2 KB (255 words) - 14:42, 12 August 2022
Category:GPU
[[Category:Software]]

10 members (1 subcategory, 0 files) - 18:36, 6 June 2022
Ufraw
[[Category:Software]][[Category:Data Mining]] This is a GUI software. Follow the instructions at https://wiki.rc.ufl.edu/doc/GUI_Programs

3 KB (316 words) - 14:45, 6 June 2022
Nt
[[Category:Software]]

2 KB (262 words) - 14:38, 15 July 2022
MSMC-Tools
[[Category:Software]][[Category:Phylogenetics]]

2 KB (280 words) - 19:12, 9 June 2020
LIQA
[[Category:Software]][[Category:Phylogenetics]]

3 KB (319 words) - 20:03, 15 August 2022
PASA
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]] |{{#vardefine:exe|1}} 

4 KB (687 words) - 21:04, 4 January 2023
CNV-Seq
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (245 words) - 13:50, 15 August 2022
SUNDIALS
[[Category:Software]][[Category:Math]] ...Differential/Algebraic Equation Solvers," ACM Transactions on Mathematical Software, 31(3), pp. 363-396, 2005. Also available as LLNL technical report UCRL-JP-

3 KB (364 words) - 15:25, 19 August 2022
Seqwish
[[Category:Software]][[Category:Phylogenetics]]

3 KB (347 words) - 21:24, 6 December 2019
Barrnap
[[Category:Software]][[Category:Biology]][[Category:RNA-Seq]] |{{#vardefine:url|http://www.vicbioinformatics.com/software.barrnap.shtml}}

3 KB (328 words) - 17:55, 10 June 2022
Cupy
[[Category:Software]][[Category:Phylogenetics]]

2 KB (253 words) - 19:58, 23 May 2022
Flappie
[[Category:Software]][[Category:Phylogenetics]]

2 KB (248 words) - 21:20, 6 December 2019
Omniverse
[[Category:Software]][[Category:Library]][[Category:Math]]

7 KB (983 words) - 14:48, 25 July 2023
Braker
[[Category:Software]][[Category:Phylogenetics]] https://github.com/Gaius-Augustus/BRAKER#citing-braker-and-software-called-by-braker

2 KB (261 words) - 22:28, 26 August 2020
Kmerfreq
[[Category:Software]]

3 KB (449 words) - 19:28, 12 August 2022
Platon
[[Category:Software]] <code>Robertson J., Nash J. H. E. (2018) MOB-suite: Software Tools for Clustering, Reconstruction and Typing of Plasmids From Draft Asse

4 KB (437 words) - 17:14, 14 December 2022
Pdb2pqr
[[Category:Software]][[Category:Biology]][[Category:modeling]]

3 KB (336 words) - 17:51, 15 August 2022
IOAPI
[[Category:Software]][[Category:Climate]] |{{#vardefine:exe|}} 

2 KB (341 words) - 19:35, 24 August 2022
Autometa
[[Category:Software]][[Category:Phylogenetics]]

3 KB (300 words) - 21:19, 6 December 2019
SEQPower
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:Phylogenetics]]

2 KB (274 words) - 22:38, 21 August 2022
Crest
[[Category:Software]]

3 KB (320 words) - 16:16, 24 April 2023
Pcangsd
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]

3 KB (343 words) - 18:21, 8 December 2023
RepeatExplorer
[[Category:Software]][[Category:Biology]][[Category:NGS]]

2 KB (278 words) - 21:44, 21 August 2022
Embree
[[Category:Software]][[Category:Graphics]]

3 KB (343 words) - 15:01, 15 August 2022
NLP
[[Category:Software]][[Category:Machine Learning]][[Category:Data Science]] ...ifferent software environments and examples with Nvidia Megatron and other software. NLP is involved in many other fields of AI, such as image recognition. Res

3 KB (440 words) - 15:06, 26 September 2023
SIFT
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (303 words) - 20:40, 12 August 2022
Ncftp
[[Category:Software]][[Category:File Management]]

2 KB (256 words) - 13:54, 21 October 2022
SHAPE-MaP
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] |{{#vardefine:url|http://www.chem.unc.edu/rna/software.html}}

3 KB (325 words) - 17:25, 10 June 2022
Vibrant
[[Category:Software]][[Category:Genomics]]

3 KB (333 words) - 17:36, 15 August 2022
Bam-Readcount
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (258 words) - 15:11, 10 June 2022
MAnorm
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (370 words) - 14:07, 27 May 2022
Julia
[[Category:Software]][[Category:Language]][[Category:Programming]][[Category:Statistics]]

3 KB (412 words) - 20:49, 21 October 2022
XWAS
[[Category:Software]][[Category:Phylogenetics]]

3 KB (383 words) - 13:27, 31 August 2020
Physher
[[Category:Software]][[Category:Phylogenetics]]

3 KB (312 words) - 15:28, 16 November 2021
WDSSII
[[Category:Software]][[Category:Climate]] |{{#vardefine:exe|}} 

2 KB (299 words) - 20:05, 24 August 2022
Ltr finder
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (416 words) - 20:21, 15 August 2022
Shustring
[[Category:Software]][[Category:Biology]][[Category:Sequencing]]

2 KB (237 words) - 14:55, 10 June 2022
Processing
[[Category:Software]][[Category:Language]][[Category:Programming]][[Category:Visualization]] ...within the context of the visual arts. Since 2001, Processing has promoted software literacy within the visual arts and visual literacy within technology. Ther

2 KB (285 words) - 12:12, 26 August 2022
Quake
[[Category:Software]][[Category:Biology]][[Category:Sequencing]] |{{#vardefine:url|http://www.cbcb.umd.edu/software/quake/}}

3 KB (367 words) - 18:50, 10 June 2022
V-Phaser
[[Category:Software]][[Category:biology]][[Category:phylogenetics]]

3 KB (390 words) - 20:07, 27 May 2022
Package-GFE
[[Category:Software]][[Category:Biology]][[Category:Genomics]] This software package is for estimating allele and genotype frequencies from nucleotide r

2 KB (280 words) - 16:45, 10 June 2022
Metilene
[[Category:Software]][[Category:biology]][[Category:genomics]] |{{#vardefine:url|https://www.bioinf.uni-leipzig.de/Software/metilene/}}

3 KB (375 words) - 19:39, 18 August 2022
SCOP
[[Category:Software]]

2 KB (295 words) - 17:31, 15 August 2022
CGATools
[[Category:Software]][[Category:Biology]][[Category:NGS]]

2 KB (291 words) - 13:26, 15 August 2022
Arcashla
[[Category:Software]]

2 KB (250 words) - 19:33, 24 July 2023
MKL
[[Category:Software]][[Category:Library]][[Category:Math]][[Category:Programming]][[Category:Co |{{#vardefine:url|https://software.intel.com/en-us/mkl}}

3 KB (378 words) - 19:14, 24 August 2022
Storage
...ng data files in any analyses run on HiPerGator. It is permissible to keep software builds, conda environments, text documents, and valuable scripts in $HOME a

12 KB (2,046 words) - 15:26, 13 July 2023
Xlsx2csv
[[Category:Software]]

2 KB (241 words) - 20:08, 24 October 2022
Svtyper
[[Category:Software]]

3 KB (360 words) - 14:04, 3 October 2022
Platypus
[[Category:Software]][[Category:Biology]][[Category:NGS]]

3 KB (435 words) - 19:21, 10 June 2022
Pysamstats
[[Category:Software]][[Category:Phylogenetics]]

2 KB (259 words) - 19:52, 29 September 2020
Moni
[[Category:Software]][[Category:genomics‏‎]][[Category:Biology]]

3 KB (341 words) - 13:31, 15 August 2022
MGEScan
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (299 words) - 16:58, 10 June 2022
Necklace
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] ...ovo assembly, in addition to using the reference annotation. Necklace is a software pipeline to run genome-guided and de novo assembly and combine the resultin

3 KB (312 words) - 21:22, 6 December 2019
Nanodisco
[[Category:Software]][[Category:Phylogenetics]]

3 KB (326 words) - 14:37, 27 August 2021
Qupath
[[Category:Software]][[Category:Biology]][[Category:Imaging]] Bankhead, P. et al. QuPath: Open source software for digital pathology image analysis. Scientific Reports (2017).

2 KB (290 words) - 17:50, 11 April 2023
ANNOVAR
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:exe|}} 

4 KB (545 words) - 14:16, 12 August 2022
Dammit
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] ..., the existing solutions are overly complicated or rely on crappy non-free software.

2 KB (279 words) - 21:20, 6 December 2019
Category:Physics
[[Category:Software]]

21 members (0 subcategories, 0 files) - 15:38, 19 September 2014
Odgi
[[Category:Software]][[Category:Phylogenetics]]

2 KB (264 words) - 14:11, 15 July 2021
Add New App Page
...app module name e.g. "foo" into the text box and click on the "Create new software page" button. Edit the resulting page as necessary.

245 bytes (44 words) - 17:34, 3 June 2022
SHARCGS
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:De Novo]]

3 KB (313 words) - 22:42, 21 August 2022
LINKS
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (274 words) - 16:16, 10 June 2022
Syri
[[Category:Software]][[Category:genomics‏‎]][[Category:Biology]]

3 KB (324 words) - 13:31, 15 August 2022
MiRanda
[[Category:Software]][[Category:Phylogenetics]]

2 KB (278 words) - 21:21, 6 December 2019
PROVEAN
[[Category:Software]][[Category:Biology]][[Category:Genomics]] PROVEAN (Protein Variation Effect Analyzer) is a software tool which predicts whether an amino acid substitution or indel has an impa

3 KB (350 words) - 20:27, 12 August 2022
ABRicate
[[Category:Software]][[Category:Phylogenetics]] If you publish the results of Abricate please cite both the software and the appropriate database you used with --db

3 KB (314 words) - 17:27, 27 April 2020
Mikado
[[Category:Software]]

4 KB (495 words) - 19:45, 18 August 2022
Structure
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:exe|}} 

2 KB (325 words) - 16:03, 22 August 2022
CAVIAR
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (275 words) - 21:17, 6 December 2019
NGmerge
[[Category:Software]][[Category:Phylogenetics]]

2 KB (245 words) - 21:22, 6 December 2019
DALIGNER
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (238 words) - 14:28, 15 August 2022
Coverm
[[Category:Software]][[Category:Biology]][[Category:Metagenomics]]

2 KB (290 words) - 18:14, 27 September 2023
Software Development Policies
==External Software Components== ...d to get a security review or risk assessment for such software. Only when software is exposed to the outside world, e.g. as part of PubApps, will a security r

533 bytes (84 words) - 15:43, 19 August 2022

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