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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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NanoSV Resource Report Resource Website 1+ mentions |
NanoSV (RRID:SCR_024127) | software toolkit, software resource | Software package that can be used to identify structural genomic variations in long-read sequencing data, such as data produced by Oxford Nanopore Technologies� MinION, GridION or PromethION instruments, or Pacific Biosciences RSII or Sequel sequencers. | identify structural genomic variations, long-read sequencing data, Oxford Nanopore Technologies� MinION, GridION, PromethION, Pacific Biosciences RSII, Sequel sequencers. | is listed by: Debian | PMID:29109544 | Free, Available for download, Freely available, | OMICS_29732 | https://sources.debian.org/src/nanosv/ | SCR_024127 | nanosv | 2026-08-09 09:08:23 | 4 | ||||||
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GenomeTester4 Resource Report Resource Website 1+ mentions |
GenomeTester4 (RRID:SCR_024026) | software toolkit, software resource | Software toolkit for performing set operations - union, intersection and complement on k-mer lists. | performing set operations on k-mer lists, | is listed by: Debian | PMID:26640690 | Free, Available for download, Freely available, | OMICS_02363w | https://sources.debian.org/src/genometester/ | SCR_024026 | genometester | 2026-08-09 09:08:21 | 4 | ||||||
|
Augur Resource Report Resource Website 50+ mentions |
Augur (RRID:SCR_023964) | software toolkit, software resource | Software package to track evolution from sequence and serological data. Provides collection of commands which are designed to be composable into larger processing pipelines. | track evolution, sequence, serological data. | is listed by: Debian | Free, Available for download, Freely available | https://sources.debian.org/src/augur/, https://docs.nextstrain.org/projects/augur/en/stable/ | SCR_023964 | augur | 2026-08-09 09:08:20 | 88 | ||||||||
|
ExaBayes Resource Report Resource Website 1+ mentions |
ExaBayes (RRID:SCR_024019) | software toolkit, software resource | Software package for Bayesian tree inference. Used for large-scale analyses on computer clusters. | Bayesian tree inference, large-scale analyses, computer clusters, | is listed by: Debian | PMID:25135941 | Free, Available for download, Freely available | OMICS_10303 | https://sources.debian.org/src/exabayes/ | SCR_024019 | exabayes | 2026-08-09 09:08:44 | 7 | ||||||
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CTK Resource Report Resource Website 1+ mentions |
CTK (RRID:SCR_024002) | software toolkit, software resource | Software to support biomedical image computing. | support biomedical image computing, biomedical image computing, | is listed by: Debian | Free, Available for download, Freely available | https://sources.debian.org/src/libctk-dev/ | SCR_024002 | CTK - The Common Tool Kit, ctk | 2026-08-09 09:08:52 | 2 | ||||||||
|
pycoqc Resource Report Resource Website 10+ mentions |
pycoqc (RRID:SCR_024185) | software toolkit, software resource | Software application to compute metrics and generate interactive QC plots for Oxford Nanopore technologies sequencing data. | compute metrics, generate interactive QC plots, Oxford Nanopore technologies sequencing data, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/pycoqc/ | SCR_024185 | 2026-08-09 09:08:48 | 24 | |||||||||
|
annotate Resource Report Resource Website |
annotate (RRID:SCR_024221) | software toolkit, software resource | Software R package for using R enviroments for annotation. | R enviroments, annotation, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-annotate/ | SCR_024221 | 2026-08-09 09:08:59 | 0 | |||||||||
|
altcdfenvs Resource Report Resource Website |
altcdfenvs (RRID:SCR_024225) | software toolkit, software resource | Software R package contains convenience data structures and functions to handle cdfenvs. | convenience data structures and functions, handle cdfenvs, | is listed by: Debian | PMID:15310390 | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-altcdfenvs/ | SCR_024225 | alternative CDF environments | 2026-08-09 09:08:49 | 0 | |||||||
|
epibasix Resource Report Resource Website |
epibasix (RRID:SCR_024275) | software toolkit, software resource | Software R package for analysis of common epidemiological problems, ranging from sample size estimation, through 2x2 contingency table analysis and basic measures of agreement. | epidemiological problems analysis, sample size estimation, contingency table analysis, basic measures of agreement, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-epibasix/ | SCR_024275 | epibasix: Elementary Epidemiological Functions for Epidemiology and Biostatistics, r-cran-epibasix | 2026-08-09 09:09:01 | 0 | ||||||||
|
incidence Resource Report Resource Website |
incidence (RRID:SCR_024276) | software toolkit, software resource | Software R package provides functions and classes to compute, handle and visualise incidence from dated events for defined time interval. Dates can be provided in various standard formats. | compute incidence, handle incidence, visualise incidence, dated events, defined time interval, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-incidence/ | SCR_024276 | 2026-08-09 09:08:50 | 0 | |||||||||
|
biwt Resource Report Resource Website |
biwt (RRID:SCR_024271) | software toolkit, software resource | Software R package for compute multivariate location, scale, and correlation estimates based on Tukey's biweight M-estimator. | compute multivariate location, scale and correlation estimates, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-biwt/ | SCR_024271 | biwt: Compute the Biweight Mean Vector and Covariance & Correlation Matrice, r-cran-biwt | 2026-08-09 09:08:25 | 0 | ||||||||
|
Epi Resource Report Resource Website 1+ mentions |
Epi (RRID:SCR_024272) | software toolkit, software resource | Software R package provides functions for demographic and epidemiological analysis in Lexis diagram, i.e. register and cohort follow-up data. In particular representation, manipulation, rate estimation and simulation for multistate data - the Lexis suite of functions, which includes interfaces to 'mstate', 'etm' and 'cmprsk' packages. Contains functions for Age-Period-Cohort and Lee-Carter modeling and function for interval censored data and some useful functions for tabulation and plotting, as well as number of epidemiological data sets. | demographic and epidemiological analysis in Lexis diagram, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-epi/ | SCR_024272 | r-cran-epi, Epi: Statistical Analysis in Epidemiology | 2026-08-09 09:09:01 | 1 | ||||||||
|
preprocesscore Resource Report Resource Website 50+ mentions |
preprocesscore (RRID:SCR_024254) | software toolkit, software resource | Software library of core preprocessing routines. | core preprocessing routines, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-preprocesscore/ | SCR_024254 | 2026-08-09 09:09:00 | 63 | |||||||||
|
qusage Resource Report Resource Website 1+ mentions |
qusage (RRID:SCR_024255) | software toolkit, software resource | Software R package is implementation Quantitative Set Analysis for Gene Expression method. Used to provide faster, more accurate, and easier to understand test for gene expression studies. | test for gene expression studies, | is listed by: Debian | PMID:23921631 | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-qusage/ | SCR_024255 | Quantitative Set Analysis for Gene Expression | 2026-08-09 09:08:50 | 3 | |||||||
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rsamtools Resource Report Resource Website 50+ mentions |
rsamtools (RRID:SCR_024257) | software toolkit, software resource | Software R package provides interface to the 'samtools', 'bcftools', and 'tabix' utilities for manipulating Sequence Alignment Map, FASTA, binary variant call and compressed indexed tab-delimited files. | tabix interface, samtools interface, bcftools interface, Sequence Alignment Map manipulation, SAM manipulation, FASTA manipulation, binary variant call manipulation, compressed indexed tab delimited files manipulation, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-rsamtools/ | SCR_024257 | 2026-08-09 09:09:00 | 61 | |||||||||
|
savr Resource Report Resource Website |
savr (RRID:SCR_024258) | software toolkit, software resource | Software R package to parse Illumina Sequence Analysis Viewer files, access data, and generate QC plots. | parse Illumina Sequence Analysis Viewer files, access data, generate QC plots, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_15992 | https://sources.debian.org/src/r-bioc-savr/ | SCR_024258 | 2026-08-09 09:08:50 | 0 | ||||||||
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nanostringqcpro Resource Report Resource Website 1+ mentions |
nanostringqcpro (RRID:SCR_024250) | software toolkit, software resource | Software R package to assess quality of NanoString mRNA gene expression data, to identify outlier probes and outlier samples. Provides different background subtraction and normalization approaches for this data. It outputs suggestions for flagging samples/probes and easily sharable html quality control output. | assess quality of NanoString mRNA gene expression data, identify outlier probes and outlier samples, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-nanostringqcpro/ | SCR_024250 | 2026-08-09 09:08:25 | 7 | |||||||||
|
pwmenrich Resource Report Resource Website 1+ mentions |
pwmenrich (RRID:SCR_024249) | software toolkit, software resource | Software toolkit of high level functions for DNA motif scanning and enrichment analysis built upon Biostrings. Used for PWM enrichment analysis of already known PWMs. Also implements high-level functions for PWM scanning and visualisation. | DNA motif scanning and enrichment analysis, Biostrings, PWM enrichment analysis, PWM scanning and visualisation, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-pwmenrich/ | SCR_024249 | 2026-08-09 09:08:50 | 3 | |||||||||
|
xvector Resource Report Resource Website |
xvector (RRID:SCR_024263) | software toolkit, software resource | Software R package provides memory efficient S4 classes for storing sequences externally. | provides memory efficient S4 classes, storing sequences externally, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-xvector/ | SCR_024263 | 2026-08-09 09:09:01 | 0 | |||||||||
|
BoolNet Resource Report Resource Website 1+ mentions |
BoolNet (RRID:SCR_024264) | software toolkit, software resource | Software R package provides functions to reconstruct, generate, and simulate synchronous, asynchronous, probabilistic, and temporal Boolean networks. Provides also functions to analyze and visualize attractors in Boolean networks. | reconstruct, generate, simulate, synchronous, asynchronous, probabilistic, temporal, Boolean networks, | is listed by: Debian | PMID:20378558 | Free, Available for download, Freely available, | OMICS_06963 | https://sources.debian.org/src/r-cran-boolnet/ | SCR_024264 | BoolNet: Construction, Simulation and Analysis of Boolean Networks, r-cran-boolnet | 2026-08-09 09:08:50 | 2 |
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