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Generic Mapping Tools
[[Category:Software]]

3 KB (336 words) - 16:56, 10 October 2022
SMARTdenovo
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (296 words) - 21:24, 6 December 2019
Sampledock
[[Category:Software]][[Category:Machine Learning]][[Category:Molecular Dynamics]]

2 KB (253 words) - 17:59, 15 August 2022
LillyMol
[[Category:Software]]

2 KB (236 words) - 14:39, 27 January 2023
Openmc
[[Category:Software]]

2 KB (287 words) - 20:25, 21 February 2024
Sate
[[Category:Software]][[Category:biology]][[Category:phylogenetics]] |{{#vardefine:url|http://phylo.bio.ku.edu/software/sate/sate.html}}

7 KB (910 words) - 20:43, 21 December 2022
DDT
[[Category:Software]][[Category:Utility]]

5 KB (754 words) - 19:24, 30 October 2023
Kalign
[[Category:Software]]

2 KB (265 words) - 19:28, 12 August 2022
MAJIQ
[[Category:Software]][[Category:Phylogenetics]] MAJIQ and Voila are two software packages that together detect, quantify, and visualize local splicing varia

2 KB (247 words) - 14:59, 10 June 2022
Aria2
[[Category:Software]][[Category:Utility]]

3 KB (326 words) - 14:05, 17 September 2020
Velvet
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

4 KB (523 words) - 17:06, 14 December 2022
Pbrt
[[Category:Software]][[Category:Phylogenetics]]

2 KB (259 words) - 18:20, 27 May 2022
Gerbil
[[Category:Software]][[Category:Phylogenetics]] ...hat is specialized for high effiency when counting k-mers for large k. The software is decribed here.

3 KB (320 words) - 14:34, 3 January 2020
Randfold
[[Category:Software]][[Category:Biology]]

2 KB (262 words) - 21:29, 21 August 2022
BIOM
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (272 words) - 21:02, 6 December 2019
QDD
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]

4 KB (485 words) - 20:08, 21 August 2022
FASTRAL-constrained
[[Category:Software]][[Category:Phylogenetics]]

2 KB (271 words) - 15:25, 15 August 2022
ITK
[[Category:Software]][[Category:Biology]] |{{#vardefine:exe|}} 

2 KB (339 words) - 19:04, 15 August 2022
Pggb
[[Category:Software]][[Category:Phylogenetics]]

2 KB (287 words) - 19:56, 6 November 2020
PHI
[[Category:Software]][[Category:Math]]

3 KB (326 words) - 18:25, 13 July 2022
Fgbio
[[Category:Software]][[Category:Phylogenetics]]

2 KB (292 words) - 21:20, 6 December 2019
PSMC
[[Category:Software]][[Category:Phylogenetics]] This software package infers population size history from a diploid sequence

2 KB (263 words) - 14:01, 28 February 2020
RiboPicker
[[Category:Software]][[Category:Biology]][[Category:Sequencing]] |{{#vardefine:exe|1}} 

3 KB (377 words) - 21:50, 21 August 2022
Counterr
[[Category:Software]][[Category:Phylogenetics]]

3 KB (342 words) - 21:15, 6 December 2019
Elastix
[[Category:Software]][[Category:Phylogenetics]] ...on the well-known Insight Segmentation and Registration Toolkit (ITK). The software consists of a collection of algorithms that are commonly used to solve (med

3 KB (365 words) - 15:30, 3 June 2022
AutoDock
[[Category:Software]][[Category:Biology]]

2 KB (268 words) - 15:47, 10 June 2022
Program Database Toolkit
[[Category:Software]][[Category:Language]][[Category:Programming]][[Category:Performance Analys uniform way through a class library supporting common PDB operations. Software

3 KB (370 words) - 14:38, 18 October 2022
PanX
[[Category:Software]][[Category:Phylogenetics]] panX is a software package for pan-genome analysis, interactive visualization and exploration.

3 KB (346 words) - 21:22, 6 December 2019
Asap
[[Category:Software]][[Category:Visualization]][[Category:Biology]]

3 KB (295 words) - 17:29, 9 June 2022
Freyja
[[Category:Software]][[Category:Phylogenetics]][[Category:Sequencing]][[Category:Biology]]

2 KB (289 words) - 16:49, 15 August 2022
Gimmemotifs
[[Category:Software]]

2 KB (293 words) - 15:41, 30 June 2023
OpenBabel
[[Category:Software]][[Category:Biology]]

2 KB (283 words) - 17:51, 19 August 2022
FreeBayes
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:exe|}} 

2 KB (302 words) - 18:55, 12 August 2022
Graph-tool
[[Category:Software]][[Category:Phylogenetics]]

2 KB (285 words) - 17:20, 15 August 2022
Freesurfer
[[Category:Software]][[Category:Neuroscience]][[Category:Biology]][[Category:Imaging]] Starting with freesurfer/6.0.0 the software is available as a Singularity container. To run any executable use the 'lau

3 KB (323 words) - 20:09, 12 August 2022
Neovim
[[Category:Software]][[Category:Programming]][[Category:Shell]][[Category:Utility]]

3 KB (327 words) - 20:24, 2 February 2024
SQANTI
[[Category:Software]][[Category:Phylogenetics]]

3 KB (321 words) - 21:24, 6 December 2019
Gblocks
[[Category:Software]][[Category:Biology]]

3 KB (441 words) - 13:56, 13 June 2022
Pyroms
[[Category:Software]][[Category:Geospatial]]

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

3 KB (358 words) - 21:22, 6 December 2019
Ngmlr
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (279 words) - 16:24, 10 June 2022
CONNECT
[[Category:Software]][[Category:Phylogenetics]]

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

2 KB (263 words) - 13:31, 6 October 2021
Blackfynn
[[Category:Software]][[Category:Data Mining]]

2 KB (280 words) - 19:12, 27 May 2022
Pseudofinder
[[Category:Software]][[Category:Phylogenetics]]

3 KB (304 words) - 13:41, 11 October 2021
MPFR
[[Category:Software]][[Category:Library]][[Category:Math]]

2 KB (302 words) - 21:22, 6 December 2019
SUMO
[[Category:Software]][[Category:Phylogenetics]]

2 KB (275 words) - 21:24, 6 December 2019
BRATNextGen
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:url|http://www.helsinki.fi/bsg/software/BRAT-NextGen/}}

2 KB (268 words) - 13:10, 15 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
Popoolation
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (321 words) - 21:23, 6 December 2019
SeqyClean
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]]

3 KB (312 words) - 22:41, 21 August 2022
Nimare
[[Category:Software]]

3 KB (343 words) - 15:27, 15 August 2022
MISO
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]][[Category:RNA-

3 KB (390 words) - 20:44, 18 August 2022
ELPA
[[Category:Software]][[Category:Math]][[Category:Library]][[Category:Compiler]]

2 KB (290 words) - 14:58, 15 August 2022
CFITSIO
[[Category:Software]][[Category:Library]][[Category:Compiler]]

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

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

3 KB (425 words) - 14:43, 11 October 2023
PHYLIP
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (241 words) - 14:42, 10 June 2022
Bamsnap
[[Category:Software]][[Category:Phylogenetics]]

2 KB (248 words) - 16:14, 27 May 2022
BEAR
[[Category:Software]][[Category:Biology]][[Category:genomics]]

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

2 KB (269 words) - 18:52, 12 August 2022
LoRDEC
[[Category:Software]][[Category:Phylogenetics]]

2 KB (258 words) - 13:38, 22 April 2021
MCNP
[[Category:Software]][[Category:Physics]] ...message from RSICC’s Request History tool that contains a list all of the software for which you have been licensed to the [[Remote_Support#Email|User Support

3 KB (422 words) - 21:39, 4 April 2024
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
IAssembler
[[Category:Software]][[Category:Biology]][[Category:Assembly]]

3 KB (301 words) - 18:39, 15 August 2022
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
LIBXSMM
[[Category:Software]][[Category:Library]][[Category:Compiler]][[Category:Math]]

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

2 KB (232 words) - 18:13, 21 August 2022
Aquamis
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

3 KB (348 words) - 22:07, 20 October 2023
Ssr pipeline
[[Category:Software]][[Category:biology]][[Category:Sequencing]] ...hon installed on their computers or who do not have the ability to compile software also may choose to download packaged executable files. These files include

4 KB (501 words) - 18:55, 6 June 2022
Hapsembler
[[Category:Software]][[Category:Biology]][[Category:Assembly]]

3 KB (332 words) - 18:15, 15 August 2022
Trycycler
[[Category:Software]][[Category:Phylogenetics]]

3 KB (305 words) - 18:13, 22 July 2021
Oases
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Assembly]] |{{#vardefine:exe|}} 

2 KB (293 words) - 17:25, 19 August 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
HOOMD
[[Category:Software]][[Category:Library]][[Category:Math]]

5 KB (607 words) - 15:40, 6 June 2022
Genomic-fluidity
[[Category:Software]][[Category:Phylogenetics]]

2 KB (282 words) - 21:21, 6 December 2019
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
QMCPACK
[[Category:Software]][[Category:Library]]

2 KB (259 words) - 21:24, 6 December 2019
Tesseract
[[Category:Software]]

2 KB (271 words) - 17:29, 3 April 2024
Recon
[[Category:Software]][[Category:Biology]][[Category:Sequencing]] |{{#vardefine:url|http://eddylab.org/software/recon/}}

2 KB (260 words) - 21:38, 21 August 2022
TASSEL
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:Sequencing]] ...a group focused on maize genetics and genomics, and for these reasons that software has design and computational optimizations that account for the biology fou

3 KB (386 words) - 16:13, 22 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
GenomicTools
[[Category:Software]][[Category:NGS]][[Category:Biology]][[Category:ChIP-Seq]][[Category:RNA-Se

3 KB (385 words) - 18:58, 12 August 2022
Assemblytics
[[Category:Software]][[Category:Phylogenetics]]

2 KB (252 words) - 17:02, 29 September 2020
GRASS
[[Category:Software]][[Category:Geospatial]] ...ort System), is a free and open source Geographic Information System (GIS) software suite used for geospatial data management and analysis, image processing, g

5 KB (593 words) - 21:27, 14 December 2022
TEMP
[[Category:Software]][[Category:Phylogenetics]] TEMP is a software package for detecting transposable elements (TEs) insertions and absences f

2 KB (270 words) - 21:29, 6 December 2019
Brewery
[[Category:Software]][[Category:Phylogenetics]]

2 KB (245 words) - 17:40, 24 January 2020
PLUMED
[[Category:Software]][[Category:Chemistry]][[Category:Molecular Dynamics]]

2 KB (290 words) - 15:30, 19 August 2022
DCC
[[Category:Software]][[Category:biology]][[Category:NGS]]

2 KB (236 words) - 18:45, 12 August 2022
XCrySDen
[[Category:Software]][[Category:Material Science]]

2 KB (282 words) - 17:47, 22 August 2022
TaxonKit
[[Category:Software]][[Category:Phylogenetics]]

2 KB (262 words) - 19:01, 13 December 2021
HapCompass
[[Category:Software]][[Category:Genomics]][[Category:NGS]]

2 KB (287 words) - 18:13, 15 August 2022
SCOP
[[Category:Software]]

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

24 members (0 subcategories, 0 files) - 15:24, 23 August 2022
QuartetScores
[[Category:Software]][[Category:Phylogenetics]]

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

17 members (0 subcategories, 0 files) - 17:19, 6 June 2022
OPENACC
[[Category:Software]][[Category:Programming]]

2 KB (291 words) - 12:01, 26 August 2022
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
SIPeS
[[Category:Software]][[Category:Biology]][[Category:ChIP-Seq]]

3 KB (327 words) - 20:41, 12 August 2022
Moni
[[Category:Software]][[Category:genomics‏‎]][[Category:Biology]]

3 KB (341 words) - 13:31, 15 August 2022

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