Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
BIRDSUITE Resource Report Resource Website 10+ mentions |
BIRDSUITE (RRID:SCR_001794) | Birdsuite | software application, software resource | Open-source set of tools to detect and report SNP genotypes, common Copy-Number Polymorphisms (CNPs), and novel, rare, or de novo CNVs in samples processed with the Affymetrix platform. While most of the components of the suite can be run individually (for instance, to only do SNP genotyping), the Birdsuite is especially intended for integrated analysis of SNPs and CNVs. | gene, genetic, genomic, snp, genotype, copy number polymorphism, copy number variant, affymetrix |
is listed by: OMICtools is listed by: Genetic Analysis Software has parent organization: Broad Institute |
PMID:18776909 | Free, Available for download, Freely available | OMICS_00705, nlx_154245 | SCR_001794 | 2026-08-04 09:40:28 | 43 | |||||||
|
DINDEL Resource Report Resource Website 10+ mentions |
DINDEL (RRID:SCR_001827) | Dindel | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on March 7,2024. Software program for calling small indels from short-read sequence data ("next generation sequence data"). It is currently designed to handle only Illumina data. Dindel takes BAM files with mapped Illumina read data and enables researchers to detect small indels and produce a VCF file of all the variant calls. It has been written in C++ and can be used on Linux-based and Mac computers (it has not been tested on Windows operating systems). | indel, short-read, next generation sequence, illumina, gene, genetic, genomic, c++, linux, macos, bio.tools |
is listed by: OMICtools is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian has parent organization: Wellcome Trust Sanger Institute; Hinxton; United Kingdom |
PMID:20980555 DOI:10.1101/gr.112326.110 |
THIS RESOURCE IS NO LONGER IN SERVICE | , nlx_154283, OMICS_00096, biotools:dindel | https://bio.tools/dindel, https://sources.debian.org/src/dindel/ | http://www.sanger.ac.uk/resources/software/dindel/ | SCR_001827 | Dindel: Accurate indel calls from short-read data | 2026-08-04 09:40:29 | 44 | ||||
|
SOLAR Resource Report Resource Website 10+ mentions |
SOLAR (RRID:SCR_000850) | SOLAR | software application, software resource | A flexible and extensive software package for genetic variance components analysis, including linkage analysis, quantitative genetic analysis, and covariate screening. Operations are included for calculation of marker-specific or multipoint identity-by-descent (IBD) matrices in pedigrees of arbitrary size and complexity, and for linkage analysis of quantitative traits which may involve multiple loci (oligogenic analysis), dominance effects, and epistasis. (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran, c, c++, tcl, unix, (solaris 7-10/solaris x86 8-9/digital unix 4.0e/sg irix), linux, macos, ms-windows | is listed by: Genetic Analysis Software | nlx_154653 | http://www.sfbr.org/Departments/genetics_detail.aspx?p=37 | SCR_000850 | Sequential Oligogenic Linkage Analysis Routines | 2026-08-04 09:40:15 | 22 | |||||||
|
PEDIGRAPH Resource Report Resource Website 10+ mentions |
PEDIGRAPH (RRID:SCR_001938) | Pedigraph | software application, software resource | A pedigree visualization program specifically designed to draw large, complex pedigrees. (entry from Genetic Analysis Software) Options include: * Full pedigree * Summarization * Extraction of individual pedigrees * Inbreeding calculation * Coancestry coefficient calculation * Color control * Drawing size * Page size and margins * Drawing styles | gene, genetic, genomic, c, c++, ms-windows, linux, pedigree, java, bio.tools |
is listed by: OMICtools is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian has parent organization: University of Minnesota Twin Cities; Minnesota; USA |
PMID:14986440 | Acknowledgement required, Copyrighted | biotools:pedigraph, OMICS_00212, nlx_154519 | https://bio.tools/pedigraph | SCR_001938 | 2026-08-04 09:40:30 | 17 | ||||||
|
MRH Resource Report Resource Website |
MRH (RRID:SCR_000841) | MRH | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-windows, unix, solaris | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154493 | SCR_000841 | Minimum Recombinant Haplotype | 2026-08-04 09:40:15 | 0 | |||||||
|
QTL CAFE Resource Report Resource Website |
QTL CAFE (RRID:SCR_000844) | QTL CAFE | software application, software resource | Software application providing a user freiendly way to perform QTL analysis. The software currently allows 3 types of QTL analysis: (1) single marker ANOVA. (2) marker regression. (3) interval mapping by regression. (entry from Genetic Analysis Software) | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | nlx_154563 | SCR_000844 | 2026-08-04 09:40:15 | 0 | |||||||||
|
HAPMIXMAP Resource Report Resource Website |
HAPMIXMAP (RRID:SCR_006066) | HAPMIXMAP | software application, software resource | Software application for modelling extended haplotypes in genetic association studies, similar to the FASTPHASE program. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154391 | SCR_006066 | 2026-08-04 09:41:29 | 0 | |||||||||
|
PARENTE Resource Report Resource Website 1+ mentions |
PARENTE (RRID:SCR_004717) | PARENTE | software application, software resource | Software application for parentage inference using molecular data from diploid codominant markers (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154508 | SCR_004717 | 2026-08-04 09:41:12 | 2 | |||||||||
|
Multipoint Identical-by-descent Method Resource Report Resource Website |
Multipoint Identical-by-descent Method (RRID:SCR_004676) | MIM | software application, software resource | Software application using multipoint IBD method for partitioning genetic variance of quantitative traits to specific chromosome regions using data on nuclear families. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix | is listed by: Genetic Analysis Software | PMID:9433587 | nlx_154482 | SCR_004676 | 2026-08-04 09:41:11 | 0 | ||||||||
|
PEDRAW/WPEDRAW Resource Report Resource Website |
PEDRAW/WPEDRAW (RRID:SCR_004797) | PEDRAW/WPEDRAW | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 11, 2023. A pedigree drawing program using LINKAGE data files (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, ms-dos, ms-windows, x-window | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154527 | SCR_004797 | Pedigree Drawing/ Window Pedigree Drawing (MS-Window and X-Window version of PEDRAW) | 2026-08-04 09:41:13 | 0 | |||||||
|
LDHAT Resource Report Resource Website 10+ mentions |
LDHAT (RRID:SCR_006298) | LDHAT | software application, software resource | Software package for the analysis of recombination rates from population genetic data (entry from Genetic Analysis Software) | gene, genetic, genomic, c, dos | is listed by: Genetic Analysis Software | nlx_154423 | SCR_006298 | 2026-08-04 09:41:33 | 45 | |||||||||
|
TDTASP Resource Report Resource Website 1+ mentions |
TDTASP (RRID:SCR_004943) | TDTASP | software application, software resource | Software application for power and sample-size calculations for the TDT and ASP tests under a wide variety of ascertainment schemes. Uses the flexible genetic model of McGinnis. Most calculations are exact rather than asymptotic. (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran95, unix, ms-windows | is listed by: Genetic Analysis Software | nlx_154675 | SCR_004943 | Power and Sample-Size Calculations for the TDT and ASP Tests | 2026-08-04 09:41:15 | 3 | ||||||||
|
TDT/S-TDT Resource Report Resource Website 1+ mentions |
TDT/S-TDT (RRID:SCR_005548) | TDT/S-TDT | software application, software resource | Software program that provides separate results for TDT, S-TDT, and the combined (overall) test, as appropriate. (entry from Genetic Analysis Software) | gene, genetic, genomic, java, ms-windows, (95/nt) | is listed by: Genetic Analysis Software | nlx_154679 | SCR_005548 | Transmission Disequilibrium Test and Sib Transmission Disequilibrium Test | 2026-08-04 09:41:23 | 3 | ||||||||
|
SVA Resource Report Resource Website 10+ mentions |
SVA (RRID:SCR_002155) | SVA | software application, commercial organization, software resource | Software package to annotate, visualize, and analyze the genetic variants identified through next-generation sequencing studies, including whole-genome sequencing (WGS) and exome sequencing studies. SVA aims to provide the research community with a user-friendly and efficient tool to analyze large amount of genetic variants, and to facilitate the identification of the genetic causes of human diseases and related traits. | gene, genetic, genomic, annotate, visualize, genetic variant, next-generation sequencing, whole-genome sequencing, exome, sequencing, genome, disease, trait, bio.tools |
is listed by: OMICtools is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian has parent organization: Duke University School of Medicine; North Carolina; USA |
PMID:21624899 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154666, OMICS_00190, biotools:sequencevariantanalyzer | http://www.svaproject.org/, https://bio.tools/sequencevariantanalyzer | SCR_002155 | Sequence Variant Analyzer, SVA: Sequence Variant Analyzer | 2026-08-04 09:40:34 | 16 | |||||
|
PEDSCRIPT Resource Report Resource Website |
PEDSCRIPT (RRID:SCR_004571) | PEDSCRIPT | software application, software resource | Software tool that allows scripting of simple modifications to pedigree files. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154528 | SCR_004571 | 2026-08-04 09:41:10 | 0 | |||||||||
|
HAPLOBLOCKFINDER Resource Report Resource Website 1+ mentions |
HAPLOBLOCKFINDER (RRID:SCR_005844) | HAPLOBLOCKFINDER | software application, software resource | Software package for haplotype block identification, visualization and htSNP selection. It can also compare the haplotype block structure with local LD pattern. The program can be either run as a web service, or standalone executables on local machine. (entry from Genetic Analysis Software) | gene, genetic, genomic, c and perl, unix, ms-windows | is listed by: Genetic Analysis Software | nlx_154380 | SCR_005844 | 2026-08-04 09:41:27 | 6 | |||||||||
|
POLYMUTT Resource Report Resource Website 1+ mentions |
POLYMUTT (RRID:SCR_002051) | Polymutt | software application, software resource | Software program that implemented a likelihood-based framework for calling single nucleotide variants and detecting de novo point mutation events in families for next-generation sequencing data. The program takes as input genotype likelihood format (GLF) files which can be generated following the Creation of GLF files instruction and outputs the result in the (VCF) format. The variant calling and de novo mutation detection are modelled jointly within families and can handle both nuclear and extended pedigrees without consanguinity loops. The input is a set of GLF files for each of family members and the relationships are specified through the .ped file. (entry from Genetic Analysis Software) | gene, genetic, genomic, next-generation sequencing, mutation, de novo point mutation, single nucleotide variant |
is listed by: OMICtools is listed by: Genetic Analysis Software has parent organization: University of Michigan; Ann Arbor; USA |
PMID:23055937 | Free, Available for download, Freely available | OMICS_00088, nlx_154539 | SCR_002051 | POLYmorphism and de novo MUTaTion call in families with sequencing data | 2026-08-04 09:40:32 | 3 | ||||||
|
PEDPLOT Resource Report Resource Website |
PEDPLOT (RRID:SCR_003843) | PEDPLOT | software application, software resource | Pedigree Plotting Program for the Pedfile Format (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, postscript, unix, (sparc-solaris 2.5/dec unix 4.0/x86-solaris 2.6) | is listed by: Genetic Analysis Software | nlx_154526 | SCR_003843 | 2026-08-04 09:41:00 | 0 | |||||||||
|
LDMAP Resource Report Resource Website 1+ mentions |
LDMAP (RRID:SCR_006308) | LDMAP | software application, software resource | Software program for constructing linkage disequilibrium (LD) maps. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix, solaris | is listed by: Genetic Analysis Software | nlx_154425 | SCR_006308 | 2026-08-04 09:41:34 | 8 | |||||||||
|
POPGEN Resource Report Resource Website 100+ mentions |
POPGEN (RRID:SCR_007315) | software application, software resource | An R package that specifically focuses on statistical and population genetics methods. The motivation behind the package is to produce an easy to use interface to many of the commonly used methods and models used in statistical and population genetics and an alternative interface for some of the methodology produced by our group. (entry from Genetic Analysis Software) | gene, genetic, genomic, r | is listed by: Genetic Analysis Software | nlx_154543, SCR_009374, nlx_154596 | http://mathgen.stats.ox.ac.uk/software.html, https://cran.r-project.org/web/packages/popgen/index.html | SCR_007315 | R/POPGEN | 2026-08-04 09:41:48 | 198 |
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the RRID Resources search. From here you can search through a compilation of resources used by RRID and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that RRID has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on RRID then you can log in from here to get additional features in RRID such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into RRID you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
