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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]].

2,137 members (62 subcategories, 0 files) - 19:53, 20 February 2024
Installed Software

26 bytes (2 words) - 17:41, 28 September 2017
Software Development
#REDIRECT [[Software Development Policies]]

43 bytes (4 words) - 20:46, 6 June 2022
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

Page text matches

Wengan
[[Category:Software]]

4 KB (472 words) - 20:55, 12 August 2022
FMRIPrep
[[Category:Software]][[Category:Data Mining]]

2 KB (288 words) - 16:47, 17 October 2023
MISO
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]][[Category:RNA-

3 KB (390 words) - 20:44, 18 August 2022
PLUMED
[[Category:Software]][[Category:Chemistry]][[Category:Molecular Dynamics]]

2 KB (290 words) - 15:30, 19 August 2022
Panaroo
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (289 words) - 19:33, 13 June 2023
Category:Language
[[Category:Software]]

22 members (0 subcategories, 0 files) - 15:37, 3 June 2022
CFITSIO
[[Category:Software]][[Category:Library]][[Category:Compiler]]

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

2 KB (282 words) - 17:47, 22 August 2022
VAMPIR
[[Category:Software]][[Category:Performance Analysis]]

3 KB (321 words) - 17:22, 22 August 2022
Circtools
[[Category:Software]][[Category:Biology]][[Category:Documentation]] This module enables the use of the circtools software

3 KB (433 words) - 19:03, 27 January 2023
Clara
[[Category:Software]][[Category:Machine Learning]]

3 KB (362 words) - 13:39, 15 August 2022
LAPACK
[[Category:Software]][[Category:Library]][[Category:Programming]][[Category:Compiler]] LAPACK is a standard software library for numerical linear algebra. It provides routines for solving syst

2 KB (286 words) - 17:43, 15 August 2022
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
Coot
[[Category:Software]][[Category:Modeling]]

3 KB (300 words) - 21:17, 6 December 2019
Torch-geometric
[[Category:Software]][[Category:Phylogenetics]]

2 KB (241 words) - 19:43, 1 June 2022
IAssembler
[[Category:Software]][[Category:Biology]][[Category:Assembly]]

3 KB (301 words) - 18:39, 15 August 2022
Asap
[[Category:Software]][[Category:Visualization]][[Category:Biology]]

3 KB (295 words) - 17:29, 9 June 2022
Slurm-drmaa
[[Category:Software]][[Category:library]][[Category:Scheduler Apps]][[Category:Programming]] ..., portal developers and ISVs can use the same high-level API to link their software with different cluster/resource management systems.

3 KB (316 words) - 14:30, 11 July 2023
Cowast
Coupled Ocean-Atmosphere-Wave-Sediment Trnaspost (COWAST) is public domain software developed by the United States Geological Services. The COWAST modeling sys ...urning on the HDF5 support. The build_coawst.sh, configures and builds the software, and the binary coawstM is installed in the top-level directory.

3 KB (443 words) - 13:28, 27 March 2024
OpenBabel
[[Category:Software]][[Category:Biology]]

2 KB (283 words) - 17:51, 19 August 2022
RoseTTAFold
[[Category:Software]][[Category:Phylogenetics]]

3 KB (291 words) - 21:29, 20 July 2021
Mpinterfaces
[[Category:Software]][[Category:Math]]

2 KB (279 words) - 12:27, 19 August 2022
Oases
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Assembly]] |{{#vardefine:exe|}} 

2 KB (293 words) - 17:25, 19 August 2022
Platanus
[[Category:Software]][[Category:Phylogenetics]]

3 KB (318 words) - 21:23, 6 December 2019
Openstructure
[[Category:Software]][[Category:Biology]] If you like our software and have used it in your research project, please cite the following paper

3 KB (403 words) - 23:35, 6 February 2023
HOOMD
[[Category:Software]][[Category:Library]][[Category:Math]]

5 KB (607 words) - 15:40, 6 June 2022
Gblocks
[[Category:Software]][[Category:Biology]]

3 KB (441 words) - 13:56, 13 June 2022
Protobuf
[[Category:Software]][[Category:web]][[Category:library]]

2 KB (280 words) - 18:02, 15 August 2022
Ngmlr
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

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

2 KB (263 words) - 15:20, 14 March 2023
Cvbio
[[Category:Software]][[Category:Phylogenetics]]

3 KB (305 words) - 13:11, 21 October 2020
GenomicTools
[[Category:Software]][[Category:NGS]][[Category:Biology]][[Category:ChIP-Seq]][[Category:RNA-Se

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

3 KB (400 words) - 17:17, 31 May 2022
Spyder
[[Category:Software]][[Category:Programming]]

3 KB (350 words) - 18:56, 21 August 2022
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
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
Epoch
[[Category:Software]][[Category:Astronomy]]

2 KB (250 words) - 13:13, 6 June 2022
SeqyClean
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Sequencing]]

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

2 KB (247 words) - 00:05, 22 August 2022
MitoPhAST
[[Category:Software]][[Category:Phylogenetics]]

3 KB (382 words) - 14:27, 23 April 2020
RiboPicker
[[Category:Software]][[Category:Biology]][[Category:Sequencing]] |{{#vardefine:exe|1}} 

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

2 KB (241 words) - 14:42, 10 June 2022
PacBio
[[Category:Software]][[Category:biology]][[Category:NGS]][[Category:Workflow Automation]] |{{#vardefine:url|https://www.pacb.com/products-and-services/analytical-software/devnet/}}

2 KB (250 words) - 20:10, 24 August 2022
CellRanger-DNA
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]][[Category:Genomic |{{#vardefine:url|https://support.10xgenomics.com/single-cell-dna/software/pipelines/latest/what-is-cell-ranger-dna}}

2 KB (263 words) - 13:25, 15 August 2022
AutoDock
[[Category:Software]][[Category:Biology]]

2 KB (268 words) - 15:47, 10 June 2022
EQTLA
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

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

3 KB (364 words) - 20:55, 12 August 2022
Mashtree
[[Category:Software]][[Category:genomics‏‎]][[Category:Biology]] ...a rapid comparison of whole genome sequence files. Journal of Open Source Software, 4(44), 1762]

2 KB (280 words) - 13:30, 15 August 2022
OpenNeuro
[[Category:Software]][[Category:Data Science]][[Category:Biology]]

2 KB (248 words) - 17:56, 19 August 2022
FreeBayes
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:exe|}} 

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

2 KB (232 words) - 18:13, 21 August 2022
UCX
[[Category:Software]][[Category:Programming]][[Category:Programming]][[Category:Library]]

2 KB (244 words) - 12:02, 26 August 2022
R-index
[[Category:Software]][[Category:Phylogenetics]]

3 KB (319 words) - 21:24, 6 December 2019
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
Hapsembler
[[Category:Software]][[Category:Biology]][[Category:Assembly]]

3 KB (332 words) - 18:15, 15 August 2022
ZEO++
[[Category:Software]][[Category:Chemistry]] Zeo++ is a open source software for performing high-throughput geometry-based analysis of porous materials

3 KB (424 words) - 19:47, 27 May 2022
AWSCLI
[[Category:Software]][[Category:Utility]]

2 KB (267 words) - 15:26, 12 August 2022
TRUST4
[[Category:Software]][[Category:Phylogenetics]]

3 KB (314 words) - 20:12, 8 February 2021
COLMAP
[[Category:Software]][[Category:Modeling]] ...eatures for reconstruction of ordered and unordered image collections. The software is licensed under the new BSD license. If you use this project for your res

2 KB (290 words) - 16:53, 6 June 2022
Pybedtools
[[Category:Software]][[Category:Phylogenetics]]

2 KB (263 words) - 13:31, 6 October 2021
QMCPACK
[[Category:Software]][[Category:Library]]

2 KB (259 words) - 21:24, 6 December 2019
MCL
[[Category:Software]][[Category:Biology]][[Category:Genomics]] |{{#vardefine:exe|}} 

3 KB (372 words) - 18:28, 18 August 2022
Quickmerge
[[Category:Software]][[Category:Phylogenetics]]

3 KB (325 words) - 21:24, 6 December 2019
Pseudofinder
[[Category:Software]][[Category:Phylogenetics]]

3 KB (304 words) - 13:41, 11 October 2021
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
CUBE
[[Category:Software]][[Category:Library]][[Category:Math]][[Category:Compiler]] |{{#vardefine:url|http://www.scalasca.org/software/cube-4.x}}

3 KB (329 words) - 14:14, 15 August 2022
Graphaligner
[[Category:Software]][[Category:Genomics]]

2 KB (262 words) - 21:48, 12 January 2023
Category:Web
[[Category:Software]]

11 members (1 subcategory, 0 files) - 19:51, 22 August 2022
CellRanger-ATAC
[[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:RNA-Seq]] |{{#vardefine:url|https://support.10xgenomics.com/single-cell-atac/software/overview/welcome}}

2 KB (281 words) - 13:25, 15 August 2022
Trim isoseq polya
[[Category:Software]]

2 KB (298 words) - 15:04, 19 August 2022
Graftm
[[Category:Software]][[Category:Phylogenetics]]

3 KB (322 words) - 22:16, 27 August 2020
SpliceTrap
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]]

3 KB (347 words) - 20:44, 12 August 2022
LobSTR
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (259 words) - 15:19, 10 June 2022
TEtools
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]

2 KB (257 words) - 21:29, 6 December 2019
Segment-liftover
[[Category:Software]]

2 KB (251 words) - 20:38, 12 August 2022
Samba Access
...:''' There is a known issue with the CIFS client in Mac Finder. The Finder software in current version of MacOS does not have a refresh button to update conten

5 KB (816 words) - 17:31, 31 August 2023
HapCompass
[[Category:Software]][[Category:Genomics]][[Category:NGS]]

2 KB (287 words) - 18:13, 15 August 2022
Theano
[[Category:Software]][[Category:Library]][[Category:Math]][[Category:GPU]] |{{#vardefine:url|http://www.deeplearning.net/software/theano/}}

3 KB (345 words) - 15:58, 6 June 2022
Flopp
[[Category:Software]][[Category:Biology]][[Category:Population Biology]] flopp is a software package for single individual haplotype phasing of polyploid organisms from

2 KB (286 words) - 18:35, 1 December 2023
Catch
[[Category:Software]]

3 KB (422 words) - 18:23, 12 August 2022
Mamba
[[Category:Software]]

3 KB (429 words) - 20:16, 3 June 2022
APT
[[Category:Software]][[Category:Genomics]][[Category:Biology]]

3 KB (340 words) - 14:32, 12 August 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
SortMeRNA
[[Category:Software]][[Category:Biology]][[Category:Sequencing]][[Category:NGS]]

3 KB (299 words) - 17:00, 10 June 2022
SIPeS
[[Category:Software]][[Category:Biology]][[Category:ChIP-Seq]]

3 KB (327 words) - 20:41, 12 August 2022
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
Fastv
[[Category:Software]][[Category:Bioinformatics]][[Category:Sequencing]]

3 KB (327 words) - 20:08, 19 April 2024
JAGS
[[Category:Software]][[Category:Statistics]][[Category:Statistics]] |{{#vardefine:exe|}} 

2 KB (309 words) - 17:12, 10 June 2022
MONAI label
[[Category:Software]][[Category:Healthcare]]

3 KB (377 words) - 11:56, 19 August 2022
Aria2
[[Category:Software]][[Category:Utility]]

3 KB (326 words) - 14:05, 17 September 2020
Jq
[[Category:Software]][[Category:Utility]]

2 KB (241 words) - 19:12, 15 August 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
Localizer
[[Category:Software]][[Category:Phylogenetics]]

2 KB (272 words) - 20:18, 26 May 2022
Mobsuite
[[Category:Software]] Software tools for clustering, reconstruction and typing of plasmids from draft asse

3 KB (340 words) - 20:03, 10 October 2022
BIOM
[[Category:Software]][[Category:Biology]][[Category:Genomics]]

2 KB (272 words) - 21:02, 6 December 2019
MACH
[[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]] haplotypes thereof as proxies. MACH software implements a computationally

3 KB (363 words) - 20:23, 15 August 2022
CCMetagen
[[Category:Software]][[Category:Phylogenetics]]

3 KB (327 words) - 22:45, 3 January 2022
Pggb
[[Category:Software]][[Category:Phylogenetics]]

2 KB (287 words) - 19:56, 6 November 2020

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