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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
CNVer Resource Report Resource Website 1+ mentions |
CNVer (RRID:SCR_010820) | CNVer | software resource | A method for CNV detection that supplements the depth-of-coverage with paired-end mapping information, where matepairs mapping discordantly to the reference serve to indicate the presence of variation. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
biotools:cnver, OMICS_00341 | https://bio.tools/cnver | SCR_010820 | 2026-02-14 02:01:50 | 8 | ||||||||
|
CNVnator Resource Report Resource Website 500+ mentions |
CNVnator (RRID:SCR_010821) | CNVnator | software resource | An approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing. | is listed by: OMICtools | OMICS_00343 | SCR_010821 | 2026-02-14 02:02:04 | 510 | ||||||||||
|
Diplotyper Resource Report Resource Website |
Diplotyper (RRID:SCR_010789) | Diplotyper | software resource | A fully automated software tool which is available for Linux to investigate associations between a diplotype group and a phenotype in linear or logistic regression. |
is listed by: OMICtools has parent organization: Google Code |
OMICS_00195 | SCR_010789 | 2026-02-14 02:02:03 | 0 | ||||||||||
|
Control-FREEC Resource Report Resource Website 100+ mentions |
Control-FREEC (RRID:SCR_010822) | Control-FREEC | software resource | Prediction of copy number alterations and loss of heterozygosity using deep-sequencing data. | is listed by: OMICtools | OMICS_00344 | SCR_010822 | 2026-02-14 02:02:06 | 327 | ||||||||||
|
readDepth Resource Report Resource Website 10+ mentions |
readDepth (RRID:SCR_010824) | readDepth | software resource | This package for R can detect copy number aberrations by measuring the depth of coverage obtained by massively parallel sequencing of the genome. | is listed by: OMICtools | OMICS_00350 | SCR_010824 | 2026-02-14 02:01:50 | 23 | ||||||||||
|
HapCUT Resource Report Resource Website 10+ mentions |
HapCUT (RRID:SCR_010791) | HapCUT | software resource | A max-cut based algorithm for haplotype assembly using sequence reads from the two chromosomes of an individual. | is listed by: OMICtools | OMICS_00198 | SCR_010791 | 2026-02-14 02:02:04 | 17 | ||||||||||
|
Relate Resource Report Resource Website 10+ mentions |
Relate (RRID:SCR_010794) | Relate | software resource | Software providing a method that estimates the probability of sharing alleles identity by descent (IBD) across the genome and can also be used for mapping disease loci using distantly related individuals. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
PMID:19025785 | biotools:relateadmix, OMICS_00207 | https://bio.tools/relateadmix | SCR_010794 | 2026-02-14 02:02:06 | 44 | |||||||
|
National Institute of Genetics; Shizuoka; Japan Resource Report Resource Website |
National Institute of Genetics; Shizuoka; Japan (RRID:SCR_010836) | institution | Institute for genetics, through National BioResource Project, collects, preserves, and provides bio-resources (strains, populations, tissues, cells, genes of animals, plants and microorganisms, and information on these materials for R&D use) that are essential for life science research. | RIN, Resource Information Network, strains, populations, tissues, cells, genes of animals, plants and microorganisms, RRID Community Authority |
is listed by: Resource Information Network is parent organization of: Genome Network Platform is parent organization of: DNA DataBank of Japan (DDBJ) is parent organization of: NEXTDB is parent organization of: RAP-DB is parent organization of: Alternate Splicing - induced ALteration of Protein Structure is parent organization of: GTOP - Genomes To Protein structures is parent organization of: Protein Mutant Database works with: International Mouse Strain Resource |
nlx_92390 | SCR_010836 | NIG | 2026-02-14 02:02:06 | 0 | |||||||||
|
miRExpress Resource Report Resource Website 10+ mentions |
miRExpress (RRID:SCR_010831) | miRExpress | software resource | A stand-alone software package implemented for generating miRNA expression profiles from high-throughput sequencing of RNA without the need for sequenced genomes. |
is listed by: OMICtools has parent organization: National Chiao Tung University; Hsinchu; Taiwan |
OMICS_00379 | SCR_010831 | 2026-02-14 02:02:06 | 49 | ||||||||||
|
HugeSeq Resource Report Resource Website 10+ mentions |
HugeSeq (RRID:SCR_010803) | HugeSeq | software resource | An automated pipeline for detecting genetic variants from High-throUghput GEnome SEQuencing. | is listed by: OMICtools | OMICS_00288 | SCR_010803 | 2026-02-14 02:01:49 | 10 | ||||||||||
|
MutFinder Resource Report Resource Website |
MutFinder (RRID:SCR_010804) | MutFinder | software resource | It streamlines the next generation sequencing data analysis using BFAST for aligner, SAMTOOLS for SNP caller, and ANNOVAR for annotation. |
is listed by: OMICtools has parent organization: Google Code |
OMICS_00290 | SCR_010804 | Mutation finder in DNA-seq | 2026-02-14 02:02:03 | 0 | |||||||||
|
SIMPLEX Resource Report Resource Website 10+ mentions |
SIMPLEX (RRID:SCR_010807) | SIMPLEX | software resource | Cloud-enabled pipeline for the comprehensive analysis of exome sequencing data. | is listed by: OMICtools | OMICS_00294 | SCR_010807 | 2026-02-14 02:02:05 | 21 | ||||||||||
|
WEP Resource Report Resource Website |
WEP (RRID:SCR_010809) | WEP | software resource | A complete whole-exome sequencing pipeline and provides easy access through interface to intermediate and final results. | is listed by: OMICtools | OMICS_00296 | SCR_010809 | 2026-02-14 02:02:04 | 0 | ||||||||||
|
MoDIL Resource Report Resource Website 1+ mentions |
MoDIL (RRID:SCR_010764) | MoDIL | software resource | Software for a novel method for finding medium sized indels from high throughput sequencing datasets. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: University of Toronto; Ontario; Canada |
OMICS_00066, biotools:modil | https://bio.tools/modil | SCR_010764 | MoDIL: Detecting INDEL Variation with Clone-end Sequencing | 2026-02-14 02:02:05 | 4 | |||||||
|
MISA Resource Report Resource Website 500+ mentions |
MISA (RRID:SCR_010765) | MISA | software resource | Software tool that allows the identification and localization of perfect microsatellites as well as compound microsatellites which are interrupted by a certain number of bases. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
OMICS_00110, biotools:misa | https://bio.tools/misa | SCR_010765 | MISA - MIcroSAtellite identification tool | 2026-02-14 02:02:04 | 941 | |||||||
|
T-REKS Resource Report Resource Website 10+ mentions |
T-REKS (RRID:SCR_010768) | T-REKS | software resource | An algorithm for de novo detection and alignment of repeats in sequences based on K-means algorithm. | matlab | is listed by: OMICtools | PMID:19671691 | OMICS_00116 | SCR_010768 | 2026-02-14 02:02:05 | 17 | ||||||||
|
GensearchNGS Resource Report Resource Website 10+ mentions |
GensearchNGS (RRID:SCR_010802) | GensearchNGS | software resource | An integrated software solution for the analysis of DNA-Seq data from commonly used NGS equipments such as Roche/454, Illumina and Ion Torrent. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
Commercial license | OMICS_00287, biotools:gensearchngs | https://bio.tools/gensearchngs | SCR_010802 | 2026-02-14 02:02:04 | 21 | |||||||
|
AgileVariantMapper Resource Report Resource Website 1+ mentions |
AgileVariantMapper (RRID:SCR_010770) | AgileVariantMapper | software resource | Software that visualises sequence variant data from whole exome data, so that it is possible to identify autozygous regions in consanguineous individuals. | is listed by: OMICtools | PMID:23090942 | OMICS_00122 | SCR_010770 | AgileVariantMapper - Autozygosity mapping using Next generation sequence data | 2026-02-14 02:01:49 | 1 | ||||||||
|
HomSI Resource Report Resource Website 1+ mentions |
HomSI (RRID:SCR_010771) | HomSI | software resource | A software tool that identifies homozygous regions using deep sequence data. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:24307702 | Free | OMICS_00124, biotools:homsi | https://bio.tools/homsi | SCR_010771 | Homozygous Stretch Identifier from next-generation sequencing data, HomSI - Homozygous Stretch Identifier from next-generation sequencing data | 2026-02-14 02:02:03 | 4 | |||||
|
CONTRA Resource Report Resource Website 100+ mentions |
CONTRA (RRID:SCR_010814) | CONTRA | software resource | A tool for copy number variation (CNV) detection for targeted resequencing data such as those from whole-exome capture data. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: SourceForge |
OMICS_00331, biotools:contra | https://bio.tools/contra | SCR_010814 | 2026-02-14 02:02:06 | 283 |
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