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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
University of Technology at Sydney; New South Wales; Australia Resource Report Resource Website 1+ mentions |
University of Technology at Sydney; New South Wales; Australia (RRID:SCR_011711) | UTS | university | Public research university located in Sydney, Australia. |
is parent organization of: UTS Chemical Technologies Research Facility is parent organization of: UTS Microstructural Analysis Unit is parent organization of: University of Technology at Sydney Biosciences and Proteomics Technologies is parent organization of: University of Technology Sydney Microbial Imaging Core Facility |
nlx_153963, grid.117476.2, Wikidata:Q1145731, ISNI:0000 0004 1936 7611, Crossref funder ID:501100001775 | https://ror.org/03f0f6041 | SCR_011711 | University of Technology Sydney, University of Technology at Sydney | 2026-02-14 02:02:26 | 3 | ||||||||
|
G-compass Resource Report Resource Website 1+ mentions |
G-compass (RRID:SCR_011799) | G-compass | software resource | It visualizes evolutionarily conserved genomic regions between human and other 12 vertebrates based on original genome alignments pursuing higher coverage. | is listed by: OMICtools | OMICS_00934 | SCR_011799 | 2026-02-14 02:02:28 | 1 | ||||||||||
|
MT-Toolbox Resource Report Resource Website 1+ mentions |
MT-Toolbox (RRID:SCR_011833) | MT-Toolbox | software resource | A software package for building accurate ConSeqs from tagged reads. | is listed by: OMICtools | PMID:23995388 | BSD License | OMICS_01058 | SCR_011833 | Molecule Tag Toolbox | 2026-02-14 02:02:05 | 4 | |||||||
|
AlienTrimmer Resource Report Resource Website 50+ mentions |
AlienTrimmer (RRID:SCR_011835) | AlienTrimmer | software resource | Allows detecting and removing multiple alien sequences in both ends of sequence reads. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:23912058 | Free | biotools:alientrimmer, OMICS_01082 | https://bio.tools/alientrimmer | SCR_011835 | 2026-02-14 02:02:15 | 68 | ||||||
|
QTrim Resource Report Resource Website 1+ mentions |
QTrim (RRID:SCR_011842) | QTrim | software resource | A next generation sequence quality trimming tool. | is listed by: OMICtools | OMICS_01089 | SCR_011842 | 2026-02-14 02:02:28 | 6 | ||||||||||
|
Scythe Resource Report Resource Website 100+ mentions |
Scythe (RRID:SCR_011844) | Scythe | software resource | Scythe uses a Naive Bayesian approach to classify contaminant substrings in sequence reads. |
is listed by: OMICtools is listed by: Debian |
OMICS_01091 | https://sources.debian.org/src/scythe/ | SCR_011844 | Scythe - A Bayesian adapter trimmer | 2026-02-14 02:02:29 | 174 | ||||||||
|
SeqtrimNEXT Resource Report Resource Website 10+ mentions |
SeqtrimNEXT (RRID:SCR_011845) | SeqtrimNEXT | software resource | A customizable and distributed pre-processing software for NGS (Next Generation Sequencing) biological data.The old version for Sanger sequences, Seqtrim, has been discontinued. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
biotools:seqtrim, OMICS_01093 | https://bio.tools/seqtrim | SCR_011845 | Seqtrim | 2026-02-14 02:02:05 | 29 | |||||||
|
Oases Resource Report Resource Website 100+ mentions |
Oases (RRID:SCR_011896) | Oases | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 28,2023. Software tool as de novo transcriptome assembler designed to produce transcripts from short read sequencing technologies, such as Illumina, SOLiD, or 454 in the absence of any genomic assembly. | bio.tools, transcriptome assembler |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: European Bioinformatics Institute |
DOI:10.1093/bioinformatics/bts094 | THIS RESOURCE IS NO LONGER IN SERVICE | biotools:oases, OMICS_01322 | https://bio.tools/oases | https://sources.debian.org/src/oases/ | SCR_011896 | 2026-02-14 02:02:29 | 289 | |||||
|
Rnnotator Resource Report Resource Website 10+ mentions |
Rnnotator (RRID:SCR_011897) | Rnnotator | software resource | Software designed to assemble Illumina single or paired-end reads. |
is listed by: OMICtools has parent organization: Brown University; Rhode Island; USA |
OMICS_01323 | SCR_011897 | 2026-02-14 02:02:15 | 24 | ||||||||||
|
TopHat-Fusion Resource Report Resource Website 100+ mentions |
TopHat-Fusion (RRID:SCR_011899) | TopHat-Fusion | software resource | An algorithm for Discovery of Novel Fusion Transcripts with the ability to align reads across fusion points, which results from the breakage and re-joining of two different chromosomes, or from rearrangements within a chromosome. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: University of Maryland; Maryland; USA |
PMID:21835007 | OMICS_01359, biotools:tophat-fusion | https://bio.tools/tophat-fusion | SCR_011899 | TopHat-Fusion: An algorithm for Discovery of Novel Fusion Transcripts | 2026-02-14 02:02:06 | 159 | ||||||
|
Glimmer-MG Resource Report Resource Website 1+ mentions |
Glimmer-MG (RRID:SCR_011932) | Glimmer-MG | software resource | A software system for finding genes in environmental shotgun DNA sequences. | metagenomics, gene |
is listed by: OMICtools is related to: Glimmer has parent organization: University of Maryland; Maryland; USA |
Open unspecified license, OSI certified | OMICS_01487 | SCR_011932 | Glimmer-MG: Metagenomics Gene-Finding System, Gene Locator and Interpolated Markov ModelER - MetaGenomics | 2026-02-14 02:02:07 | 9 | |||||||
|
MetaGeneAnnotator Resource Report Resource Website 50+ mentions |
MetaGeneAnnotator (RRID:SCR_011934) | MetaGeneAnnotator | software resource | A gene-finding software program for prokaryote and phage., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | is listed by: OMICtools | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01490 | SCR_011934 | 2026-02-14 02:02:30 | 88 | |||||||||
|
MetaSim Resource Report Resource Website 10+ mentions |
MetaSim (RRID:SCR_011940) | MetaSim | software resource | A Sequencing Simulator for Genomics and Metagenomics. | is listed by: OMICtools | OMICS_01509 | SCR_011940 | 2026-02-14 02:02:32 | 40 | ||||||||||
|
MEGAN Resource Report Resource Website 1000+ mentions |
MEGAN (RRID:SCR_011942) | MEGAN | software resource | Software for analyzing metagenomes. | is listed by: OMICtools | OMICS_01516 | SCR_011942 | 2026-02-14 02:02:31 | 1365 | ||||||||||
|
MOCAT Resource Report Resource Website 10+ mentions |
MOCAT (RRID:SCR_011943) | MOCAT | software resource | Software package for analyzing metagenomics datasets. |
is listed by: OMICtools has parent organization: European Molecular Biology Laboratory |
OMICS_01517 | SCR_011943 | 2026-02-14 02:02:16 | 41 | ||||||||||
|
pyGCluster Resource Report Resource Website 1+ mentions |
pyGCluster (RRID:SCR_011944) | pyGCluster | software resource | A clustering algorithm focusing on noise injection for subsequent cluster validation. | is listed by: OMICtools | PMID:24177716 | OMICS_01573 | SCR_011944 | 2026-02-14 02:02:32 | 1 | |||||||||
|
Phrap Resource Report Resource Website 100+ mentions |
Phrap (RRID:SCR_011917) | Phrap | software resource | A software program for assembling shotgun DNA sequence data. | is listed by: OMICtools | Free to academic users | OMICS_01429 | SCR_011917 | 2026-02-14 02:02:16 | 370 | |||||||||
|
Ray Meta Resource Report Resource Website 10+ mentions |
Ray Meta (RRID:SCR_011918) | Ray Meta | software resource | Software for a massively distributed metagenome assembler that is coupled with Ray Communities, which profiles microbiomes based on uniquely-colored k-mers. | c++ |
is listed by: OMICtools has parent organization: SourceForge |
PMID:23259615 | Free | OMICS_01431 | SCR_011918 | 2026-02-14 02:02:31 | 12 | |||||||
|
BLAT Resource Report Resource Website 1000+ mentions |
BLAT (RRID:SCR_011919) | BLAT | software resource | Software designed to quickly find sequences of 95% and greater similarity of length 25 bases or more. | bio.tools |
is used by: deFuse is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: University of California at Santa Cruz; California; USA is required by: RelocaTE |
biotools:blat, OMICS_01434 | https://bio.tools/blat | SCR_011919 | 2026-02-14 02:02:07 | 3720 | ||||||||
|
HP Public Cloud Resource Report Resource Website 1+ mentions |
HP Public Cloud (RRID:SCR_011873) | HP Public Cloud | service resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23, 2019. Delivers public cloud infrastructure that''s business grade, open source-based, and developer focused., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | cloud, computing, storage, platform | is listed by: OMICtools | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01205 | SCR_011873 | 2026-02-14 02:02:06 | 2 |
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