Search results

MPB
[[Category:Software]][[Category:Library]][[Category:Math]] MPB is a free and open-source software package for computing the band structures, or dispersion relations, and ele

3 KB (344 words) - 21:21, 6 December 2019
Gephi
[[Category:Software]][[Category:Visualization]] Gephi is the leading visualization and exploration software for all kinds of graphs and networks.

3 KB (337 words) - 17:42, 11 January 2023
Bam-Readcount
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (258 words) - 15:11, 10 June 2022
Python Modules
[[Category:Software]]

415 bytes (50 words) - 20:40, 5 April 2018
VMD
[[Category:Software]][[Category:visualization]][[Category:animation]][[Category:Graphics]] If 3D visualization is required you will need to run this software on a HWGUI partition.

3 KB (384 words) - 17:33, 22 August 2022
Ydata-profiling
[[Category:Software]][[Category:Machine Learning]][[Category:Artificial Intelligence]]

2 KB (280 words) - 19:05, 1 December 2023
PIA2
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (249 words) - 21:22, 6 December 2019
Epiteome
[[Category:Software]][[Category:Software]][[Category:Phylogenetics]]

2 KB (253 words) - 15:06, 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
HaMStR
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

3 KB (420 words) - 20:09, 12 August 2022
IAnnotateSV
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] iAnnotateSV is a Python library and command-line software toolkit to annotate and visualize structural variants detected from Next Ge

3 KB (330 words) - 21:21, 6 December 2019
Mapdamage
[[Category:Software]][[Category:Sequencing]][[Category:Biology]][[Category:NGS]]

3 KB (299 words) - 21:28, 16 September 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
Merlin
[[Category:Software]][[Category:Biology]][[Category:Variant Calling]]

2 KB (264 words) - 12:56, 15 August 2022
Bioawk
[[Category:Software]][[Category:Phylogenetics]]

3 KB (308 words) - 12:54, 15 August 2022
Jellyfish
[[Category:Software]][[Category:Biology]][[Category:NGS]]

3 KB (333 words) - 19:27, 12 August 2022
BEAST2-XML
[[Category:Software]][[Category:Phylogenetics]]

2 KB (290 words) - 14:20, 2 September 2020
Physher
[[Category:Software]][[Category:Phylogenetics]]

3 KB (312 words) - 15:28, 16 November 2021
FragGeneScan
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:exe|1}} 

2 KB (232 words) - 16:48, 15 August 2022
Multimatch-gaze
[[Category:Software]][[Category:Math]][[Category:Data_Science]]

3 KB (318 words) - 19:07, 16 May 2023
Category:Animation
[[Category:Software]]

3 members (0 subcategories, 0 files) - 16:17, 3 June 2022
Xlsx2csv
[[Category:Software]]

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

13 members (0 subcategories, 0 files) - 18:20, 7 July 2017
Sparsehash
[[Category:Software]][[Category:web]][[Category:programming]]

3 KB (322 words) - 18:02, 15 August 2022
ParaView
[[Category:Software]][[Category:Data Science]]

3 KB (416 words) - 21:28, 13 October 2023
MIKE
[[Category:Software]][[Category:Modeling]][[Category:Geospatial]][[Category:Fluid Dynamics]] MIKE is a range of software products for accurately modeling and simulating any type of challenges in w

2 KB (259 words) - 20:26, 24 August 2022
SCOP
[[Category:Software]]

2 KB (295 words) - 17:31, 15 August 2022
MASS
[[Category:Software]][[Category:Genomics]][[Category:Biology]][[Category:Neuroscience]] Multi Atlas Skull Stripping (MASS) [ARAD2013], is a software package designed for robust and accurate brain extraction, applicable for b

2 KB (269 words) - 19:02, 10 October 2022
SExtractor
[[Category:Software]][[Category:Astronomy]] |{{#vardefine:url|https://www.astromatic.net/software/sextractor}}

2 KB (281 words) - 21:24, 6 December 2019
Aster
[[Category:Software]]

2 KB (267 words) - 17:50, 28 August 2023
Template:App Main
<noinclude>[[Category:Templates]]</noinclude><includeonly>[[Category:Software]]</includeonly>

2 KB (229 words) - 20:58, 6 December 2019
Category:Structure
[[Category:Software]]

8 members (0 subcategories, 0 files) - 18:32, 6 June 2022
Rainbow
[[Category:Software]][[Category:biology]][[Category:sequencing]]

2 KB (254 words) - 21:24, 6 December 2019
Magicblast
[[Category:Software]]

2 KB (304 words) - 16:29, 6 October 2022
Lbzip
[[Category:Software]][[Category:Compression]]

2 KB (274 words) - 14:23, 27 May 2022
Moni
[[Category:Software]][[Category:genomics‏‎]][[Category:Biology]]

3 KB (341 words) - 13:31, 15 August 2022
Photutils
[[Category:Software]][[Category:Astronomy]]

2 KB (271 words) - 13:11, 6 June 2022
CloudCompare
[[Category:Software]][[Category:Visualization]] CloudCompare is a 3D point cloud (and triangular mesh) processing software. It was originally designed to perform comparison between two 3D points clo

3 KB (314 words) - 18:20, 27 January 2020
DeTiN
[[Category:Software]][[Category:NGS]][[Category:Genomics]]

2 KB (249 words) - 14:39, 15 August 2022
ITSx
[[Category:Software]][[Category:Phylogenetics]] |{{#vardefine:url|https://microbiology.se/software/itsx/}}

2 KB (275 words) - 19:52, 10 February 2020
Hail
[[Category:Software]]

3 KB (353 words) - 17:42, 19 October 2021
PHYling
[[Category:Software]]

3 KB (375 words) - 18:17, 3 June 2022
RTGTools
[[Category:Software]][[Category:Biology]][[Category:NGS]]

2 KB (254 words) - 15:06, 10 June 2022
Plinkseq
[[Category:Software]][[Category:Biology]][[Category:Library]]

2 KB (296 words) - 20:25, 12 August 2022
DALIGNER
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (238 words) - 14:28, 15 August 2022
UNAFold
[[Category:Software]][[Category:Biology]][[Category:Genomics]] ...compute suboptimal foldings that mimic the performance of the famous mfold software.

3 KB (359 words) - 20:53, 12 August 2022
Syri
[[Category:Software]][[Category:genomics‏‎]][[Category:Biology]]

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

3 KB (338 words) - 17:43, 29 August 2022
AI Help
== AI Software == A comprehensive software stack for AI research is available on HiPerGator for both CPU and GPU accel

6 KB (870 words) - 17:17, 22 April 2024
Category:Modeling
[[Category:Software]] Modeling software

20 members (0 subcategories, 0 files) - 22:21, 29 February 2012
Ngstools
[[Category:Software]][[Category:biology]][[Category:NGS]]

5 KB (708 words) - 15:31, 14 December 2022
CIRCexplorer2
[[Category:Software]][[Category:Phylogenetics]]

2 KB (286 words) - 21:03, 6 December 2019
BUSCO
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

5 KB (607 words) - 19:38, 27 March 2023
Pandaseq
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]]

2 KB (239 words) - 18:08, 19 August 2022
GenotypeHarmonizer
[[Category:Software]][[Category:Biology]]

2 KB (286 words) - 19:01, 12 August 2022
Coverm
[[Category:Software]][[Category:Biology]][[Category:Metagenomics]]

2 KB (290 words) - 18:14, 27 September 2023
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
CodonPhyML
[[Category:Software]][[Category:Phylogenetics]]

2 KB (288 words) - 13:25, 23 July 2020
Jupyter Notebooks
[[Category:Software]][[Category:Python]][[Category:Machine Learning]] __NOTOC__

18 KB (2,983 words) - 18:58, 23 March 2023
InterProScan
[[Category:Software]][[Category:Biology]] This interproscan software allows you to query your sequence against the InterPro databases.

3 KB (334 words) - 19:23, 12 August 2022
HYPRE
[[Category:Software]][[Category:math]]

2 KB (251 words) - 18:38, 15 August 2022
Talesf
[[Category:Software]][[Category:Phylogenetics]]

2 KB (256 words) - 21:29, 6 December 2019
Flye
[[Category:Software]][[Category:Biology]][[Category:NGS]]

3 KB (317 words) - 21:20, 6 December 2019
FALCON
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]]

3 KB (395 words) - 15:19, 15 August 2022
Sweed
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (234 words) - 21:24, 6 December 2019
Gffcompare
[[Category:Software]][[Category:Phylogenetics]]

2 KB (251 words) - 16:48, 27 May 2022
CUDA Examples
[[Category:Software]]

12 KB (1,540 words) - 17:09, 21 December 2022
CONN
[[Category:Software]][[Category:imaging]] CONN is an open-source Matlab/SPM-based cross-platform software for the computation, display, and analysis of functional connectivity Magne

3 KB (293 words) - 20:32, 24 August 2022
DERIVA
[[Category:Software]][[Category:Phylogenetics]]

2 KB (269 words) - 13:51, 14 May 2021
Development and Testing
...a SLURM partition (collection of hosts) for the purpose of supporting just software development. Jobs in this partition are not subject to a user's normal [[A

5 KB (842 words) - 17:26, 8 March 2023
MOSAIK
[[Category:Software]][[Category:Biology]][[Category:Alignment]] |{{#vardefine:exe|1}} 

3 KB (414 words) - 11:59, 19 August 2022
ForeSeqs
[[Category:Software]][[Category:Phylogenetics]]

2 KB (257 words) - 21:21, 6 December 2019
PBGCpp
[[Category:Software]][[Category:Phylogenetics]]

2 KB (229 words) - 20:05, 31 May 2022
BAPS
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:url|http://www.helsinki.fi/bsg/software/BAPS/}}

3 KB (313 words) - 18:07, 12 August 2022
Mmaction2
[[Category:Software]][[Category:Machine Learning]][[Category:Visualization]]

2 KB (277 words) - 19:16, 6 June 2023
Openmc
[[Category:Software]]

2 KB (287 words) - 20:25, 21 February 2024
Ambertools
[[Category:Software]][[Category:Imaging]][[Category:Library]][[Category:Math]]

3 KB (426 words) - 14:18, 10 July 2023
Genome Graph Annotation
[[Category:Software]][[Category:Phylogenetics]]

2 KB (283 words) - 22:08, 27 August 2020
Duchamp
[[Category:Software]][[Category:Phylogenetics]]

3 KB (317 words) - 13:08, 6 June 2022
Dorado
[[Category:Software]][[Category:Genomics]] In order to run the software, you may need to load the modules "cuda" and "pytorch". You may need to als

3 KB (335 words) - 16:04, 22 February 2024
Gurobi
[[Category:Software]][[Category:Math]][[Category:Programming]]

2 KB (269 words) - 12:22, 26 August 2022
Category:Shell
[[Category:CLI]][[Category:Software]]

8 members (0 subcategories, 0 files) - 15:29, 23 August 2022
BoltzTraP
[[Category:Software]][[Category:Physics]]

2 KB (279 words) - 16:19, 10 June 2022
SNPhylo
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

3 KB (340 words) - 17:48, 10 June 2022
OrthoFiller
[[Category:Software]][[Category:Phylogenetics]]

3 KB (306 words) - 20:02, 31 May 2022
YAHA
[[Category:Software]][[Category:Biology]][[Category:NGS]]

3 KB (320 words) - 20:56, 12 August 2022
Vscode
[[Category:Software]][[Category:Programming]]

3 KB (405 words) - 14:15, 26 February 2024
TEMP2
[[Category:Software]][[Category:Phylogenetics]]

3 KB (296 words) - 15:09, 3 December 2021
Ipyrad
[[Category:Software]][[Category:Phylogenetics]]

2 KB (239 words) - 19:00, 15 August 2022
Mlcoalsim
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] ...rl|https://bioinformatics.cragenomica.es/numgenomics/people/sebas/software/software.html}}

3 KB (324 words) - 21:22, 6 December 2019
OpenMM
[[Category:Software]][[Category:Chemistry]][[Category:Molecular Dynamics]] |{{#vardefine:exe|}} 

2 KB (315 words) - 15:30, 19 August 2022
EMBOSS
[[Category:Software]][[Category:Biology]] ...to a seamless whole. EMBOSS breaks the historical trend towards commercial software packages.

3 KB (372 words) - 15:01, 15 August 2022
Kallisto
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]]

2 KB (278 words) - 16:13, 10 June 2022
Asset
[[Category:Software]]

2 KB (253 words) - 20:07, 15 June 2023
GraphViz
[[Category:Software]][[Category:Neuroscience]][[Category:Biology]][[Category:Imaging]] ...nd networks. It has important applications in networking, bioinformatics, software engineering, database and web design, machine learning, and in visual inter

2 KB (276 words) - 19:03, 12 August 2022
Msprime
[[Category:Software]][[Category:Phylogenetics]]

2 KB (253 words) - 22:49, 8 September 2020
Crossmapper
[[Category:Software]][[Category:phylogenetics]] ...d crossmapping when two or more organisms are sequenced as one sample. The software can be used for planning such kind of experimental setups as dual- or multi

3 KB (326 words) - 17:40, 31 January 2022
Phanotate
[[Category:Software]][[Category:Genomics]]

2 KB (273 words) - 20:02, 8 November 2022
CNSpipeline
[[Category:Software]][[Category:Phylogenetics]]

2 KB (245 words) - 21:19, 6 December 2019
Nf-core
[[Category:Software]][[Category:Biology]][[Category:Workflow Automation]] Nextflow enables scalable and reproducible scientific workflows using software containers. It allows the adaptation of pipelines written in the most commo

3 KB (332 words) - 18:51, 15 August 2022

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