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 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
VirVarSeq Resource Report Resource Website 10+ mentions |
VirVarSeq (RRID:SCR_012116) | software resource | Software for a low frequency Virus Variant detection pipeline for Illumina data. | illumina |
is listed by: OMICtools has parent organization: SourceForge |
PMID:25178459 | OMICS_05534 | SCR_012116 | 2026-08-01 12:04:36 | 11 | |||||||||
|
Pegasus-fus Resource Report Resource Website 10+ mentions |
Pegasus-fus (RRID:SCR_012118) | software resource | Software that annotates biologically functional gene fusion candidates. | standalone software, unix/linux, java, perl, python |
is used by: Cumulus is listed by: OMICtools has parent organization: SourceForge |
PMID:25183062 | OMICS_05584 | SCR_012118 | 2026-08-01 12:04:34 | 14 | |||||||||
|
NAIL Resource Report Resource Website 1+ mentions |
NAIL (RRID:SCR_012134) | software resource | A set of software tools to simplify the range of computational activities involved in regulatory network inference. It is technology-independent and includes an interface layer to allow easy integration of components into other applications. It is implemented in MATLAB and is available for all researchers to use. | standalone software, mac os x, unix/linux, windows, matlab, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: SourceForge |
PMID:25246431 | Apache License | OMICS_05868, biotools:nail | https://bio.tools/nail | SCR_012134 | Network Analysis and Inference Library | 2026-08-01 12:04:35 | 8 | ||||||
|
iMSAT Resource Report Resource Website 1+ mentions |
iMSAT (RRID:SCR_012135) | software resource | A python program that uses the polymorphism data obtained from mapping individual Illumina sequence reads onto a reference genome to identify polymorphic STRs. | standalone software, illumina, python |
is listed by: OMICtools has parent organization: SourceForge |
PMID:25281214 | OMICS_05873 | SCR_012135 | 2026-08-01 12:04:36 | 2 | |||||||||
|
NESmapper Resource Report Resource Website 1+ mentions |
NESmapper (RRID:SCR_012138) | software resource | A computational software tool to predict leucine-rich nuclear export signals (NESs) by using profiles that had been further optimized by training and combining the amino acid properties of the NES-flanking regions. It is a multiplatform command-line Perl application with activity-based NES profiles. | standalone software, perl |
is listed by: OMICtools has parent organization: SourceForge |
PMID:25233087 | GNU General Public License | OMICS_05911 | SCR_012138 | 2026-08-01 12:04:36 | 6 | ||||||||
|
DHAC Resource Report Resource Website 1+ mentions |
DHAC (RRID:SCR_012139) | software resource | Software for clustering time-evolving networks. | standalone software, c++, matlab |
is listed by: OMICtools has parent organization: SourceForge |
PMID:22689777 | GNU General Public License | OMICS_05923 | SCR_012139 | Dynamical Hierarchical Agglomerative Clustering | 2026-08-01 12:04:35 | 2 | |||||||
|
xMSanalyzer Resource Report Resource Website 50+ mentions |
xMSanalyzer (RRID:SCR_012144) | software resource | A software package of utilities for data extraction, quality control assessment, detection of overlapping and unique metabolites in multiple datasets, and batch annotation of metabolites. xMSanalyzer comprises of utilities that can be classified into five main modules: 1) merging apLCMS or XCMS sample processing results from multiple sets of parameter settings, 2) evaluation of sample quality, feature consistency, and batch-effect, 3) feature matching, and 4) characterization of m/z using KEGG REST; 5) Batch-effect correction using ComBat. | software package, mac os x, unix/linux, windows, r |
is listed by: OMICtools has parent organization: SourceForge |
PMID:23323971 | GNU General Public License | OMICS_06039 | SCR_012144 | 2026-08-01 12:04:34 | 81 | ||||||||
|
EXCAVATOR-tool Resource Report Resource Website 1+ mentions |
EXCAVATOR-tool (RRID:SCR_012766) | EXCAVATOR-tool | software resource | A software package for the detection of copy number variants (CNVs) from whole-exome sequencing data. |
is listed by: OMICtools has parent organization: SourceForge |
OMICS_00332 | SCR_012766 | EXCAVATOR-tool: Tool for detecting CNVs from whole-exome sequencing data | 2026-08-01 12:04:51 | 7 | |||||||||
|
Trowel Resource Report Resource Website 1+ mentions |
Trowel (RRID:SCR_012890) | Trowel | software resource | An error correction module for Illumina sequencing reads, which is based on the k-mer spectrum approach. | c++, illumina, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: SourceForge |
Apache License | OMICS_01111, biotools:trowel | https://bio.tools/trowel/ | SCR_012890 | Trowel - Error Correction Module for Illumina Sequencing Reads, Trowel - Sequencing Error Corrector | 2026-08-01 12:04:42 | 5 | ||||||
|
Onco-STS Resource Report Resource Website |
Onco-STS (RRID:SCR_012990) | Onco-STS | software resource | Software for a web-based Laboratory Information Management System for sample and analysis tracking in oncogenomic experiments. |
is listed by: OMICtools has parent organization: SourceForge |
GNU General Public License, v3 | OMICS_01008 | SCR_012990 | Onco-STS - A web-based Laboratory Information Management System | 2026-08-01 12:04:42 | 0 | ||||||||
|
NxGview Resource Report Resource Website |
NxGview (RRID:SCR_012994) | NxGview | software resource | A virtual software pipeline that contains several PERL modules for processing next generation sequencing data. |
is listed by: OMICtools has parent organization: SourceForge |
OMICS_01065 | SCR_012994 | 2026-08-01 12:04:54 | 0 | ||||||||||
|
Bamformatics Resource Report Resource Website 1+ mentions |
Bamformatics (RRID:SCR_013041) | Bamformatics | software resource | Software that provides a coherent and consistent approach to analysis of high-throughput sequencing data. | matlab |
is listed by: OMICtools has parent organization: SourceForge |
OMICS_00283 | SCR_013041 | Bamformatics - Toolkit and GUI for sequencing data analysis | 2026-08-01 12:04:55 | 1 | ||||||||
|
BSmapper Resource Report Resource Website |
BSmapper (RRID:SCR_012998) | BSmapper | software resource | Sequence mapper for bisulfite sequencing reads for DNA methylation studies. |
is listed by: OMICtools has parent organization: SourceForge |
GNU General Public License, v3 | OMICS_00580 | SCR_012998 | 2026-08-01 12:04:54 | 0 | |||||||||
|
MendelScan Resource Report Resource Website 1+ mentions |
MendelScan (RRID:SCR_013053) | MendelScan | software resource | A software tool for prioritizing candidate variants in family-based studies of inherited disease. | matlab |
is listed by: OMICtools has parent organization: SourceForge |
GNU General Public License, v2 | OMICS_00065 | SCR_013053 | MendelScan - Variant scoring and linkage mapping for family exome sequencing | 2026-08-01 12:04:44 | 4 | |||||||
|
ProbeSelect Resource Report Resource Website 1+ mentions |
ProbeSelect (RRID:SCR_012965) | ProbeSelect | software resource | Software for selecting probes in heterogenous transcriptional sets. |
is listed by: OMICtools has parent organization: SourceForge |
OMICS_00836 | SCR_012965 | ProbeSelect - Selecting probes in heterogenous transcriptional sets | 2026-08-01 12:04:43 | 4 | |||||||||
|
SeqGenome Browser Resource Report Resource Website |
SeqGenome Browser (RRID:SCR_012970) | SeqGenome Browser | software resource | Mini cross-platform local genome browser software designed for visualizing next-generation sequencing data. | c++ |
is listed by: OMICtools has parent organization: SourceForge |
GNU General Public License, v2 | OMICS_00924 | SCR_012970 | 2026-08-01 12:04:54 | 0 | ||||||||
|
miRDeep-P Resource Report Resource Website 1+ mentions |
miRDeep-P (RRID:SCR_013026) | miRDP | software resource | A computational tool for analyzing the microRNA (miRNA) transcriptome in plants. |
is listed by: OMICtools has parent organization: SourceForge |
PMID:21775303 | GNU General Public License, v3 | OMICS_00375 | SCR_013026 | 2026-08-01 12:04:54 | 6 | ||||||||
|
KungFq Resource Report Resource Website |
KungFq (RRID:SCR_012979) | KungFq | software resource | Tool that compresses and decompresses fastq files. |
is listed by: OMICtools has parent organization: SourceForge |
PMID:23221092 | OMICS_00962 | SCR_012979 | 2026-08-01 12:04:42 | 0 | |||||||||
|
ncPRO-seq Resource Report Resource Website 1+ mentions |
ncPRO-seq (RRID:SCR_013031) | ncPRO-seq | software resource | Software that aims to interrogate and perform detailed analysis on small RNAs derived from annotated non-coding regions. |
is listed by: OMICtools has parent organization: SourceForge |
PMID:23044543 | OMICS_00366 | SCR_013031 | ncPRO-seq - A tool for annotation and profiling of ncRNAs from small RNA sequencing data | 2026-08-01 12:04:44 | 9 | ||||||||
|
vcf2MSAT Resource Report Resource Website |
vcf2MSAT (RRID:SCR_013034) | vcf2MSAT | software resource | A python software program to identify microsatellite repeat regions based on known polymorphisms identified in a .vcf report after using SAMtools to analyze next-generation sequencing files. |
is listed by: OMICtools has parent organization: SourceForge |
OMICS_00118 | SCR_013034 | vcf2MSAT - Find Microsatellites in a .vcf report | 2026-08-01 12:04:54 | 0 |
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.
