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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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pycoqc Resource Report Resource Website 10+ mentions |
pycoqc (RRID:SCR_024185) | software resource, software toolkit | 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 | 2026-08-21 12:42:50 | 24 | |||||||||
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python-airr Resource Report Resource Website |
python-airr (RRID:SCR_024187) | software library, software resource, software toolkit | Software airr reference library provides basic functions and classes for interacting with AIRR Community Data Representation Standards, including tools for read, write and validation. | airr reference library, functions and classes for interacting with AIRR Community Data Representation Standards, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/python3-airr/ | SCR_024187 | 2026-08-21 12:42:56 | 0 | |||||||||
|
annotate Resource Report Resource Website |
annotate (RRID:SCR_024221) | software resource, software toolkit | 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 | 2026-08-21 12:42:57 | 0 | |||||||||
|
affyio Resource Report Resource Website |
affyio (RRID:SCR_024223) | software library, software resource, software toolkit | Software R package as routines for parsing Affymetrix data files based upon file format information. Primary focus is on accessing CEL and CDF file formats. | parsing Affymetrix data files, accessing CEL and CDF file formats, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_29381 | https://sources.debian.org/src/r-bioc-affyio/ | SCR_024223 | 2026-08-21 12:42:51 | 0 | ||||||||
|
altcdfenvs Resource Report Resource Website |
altcdfenvs (RRID:SCR_024225) | software resource, software toolkit | 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 | 2026-08-21 12:42:57 | 0 | |||||||
|
pssh2 Resource Report Resource Website |
pssh2 (RRID:SCR_024181) | software library, software resource, software toolkit | Software tools for creating the sequence-to-structure alignment database PSSH2. | creating sequence-to-structure alignment database, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/pssh2/ | SCR_024181 | 2026-08-21 12:42:50 | 0 | |||||||||
|
pyepl Resource Report Resource Website 1+ mentions |
pyepl (RRID:SCR_024182) | software library, software resource, software toolkit | Software library for coding psychology experiments in Python.Supports presentation of both visual and auditory stimuli, and supports both manual and sound input as responses. | coding psychology experiments, Python | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/python-pyepl/ | SCR_024182 | Python Experiment-Programming Library | 2026-08-21 12:42:49 | 3 | ||||||||
|
pbcopper Resource Report Resource Website |
pbcopper (RRID:SCR_024152) | software library, software resource, software toolkit | Software library provides suite of data structures, algorithms, and utilities for PacBio C++ applications. | data structures, algorithms, utilities for PacBio C++ applications, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/pbcopper/ | SCR_024152 | 2026-08-21 12:42:55 | 0 | |||||||||
|
Parsnp Resource Report Resource Website 50+ mentions |
Parsnp (RRID:SCR_024153) | software library, software resource, software toolkit | Software to align the core genome of hundreds to thousands of bacterial genomes. Input can be both draft assemblies and finished genomes, and output includes variant (SNP) calls, core genome phylogeny and multi-alignments. Parsnp leverages contextual information provided by multi-alignments surrounding SNP sites for filtration/cleaning, in addition to existing tools for recombination detection/filtration and phylogenetic reconstruction. | align core genome, bacterial genomes, | is listed by: Debian | PMID:25410596 | Free, Available for download, Freely available, | OMICS_21461 | https://sources.debian.org/src/parsnp/, https://github.com/marbl/parsnp | SCR_024153 | parsnp | 2026-08-21 12:42:49 | 54 | ||||||
|
epibasix Resource Report Resource Website |
epibasix (RRID:SCR_024275) | software resource, software toolkit | 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 | 2026-08-21 12:42:58 | 0 | ||||||||
|
PDB2PQR Resource Report Resource Website 1+ mentions |
PDB2PQR (RRID:SCR_024155) | software library, software resource, software toolkit | Software interface for running PDB2PQR web service. Used to prepare structures for further calculations by reconstructing missing atoms, adding hydrogens, assigning atomic charges and radii from specified force fields, and generating PQR files. | interface for running PDB2PQR web service, prepare structures for further calculations, reconstructing missing atoms, adding hydrogens, assigning atomic charges and radii from specified force fields, generating PQR files, | is listed by: Debian | PMID:17488841 | Free, Available for download, Freely available, | OMICS_14370 | https://sources.debian.org/src/pdb2pqr/ | SCR_024155 | pdb2pqr | 2026-08-21 12:42:49 | 2 | ||||||
|
incidence Resource Report Resource Website |
incidence (RRID:SCR_024276) | software resource, software toolkit | 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 | 2026-08-21 12:42:52 | 0 | |||||||||
|
PfTools Resource Report Resource Website 1+ mentions |
PfTools (RRID:SCR_024158) | software library, software resource, software toolkit | Software suite of tools to build and search generalized profiles. | build and search generalized profiles, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_29588 | https://sources.debian.org/src/pftools/ | SCR_024158 | pftools | 2026-08-21 12:42:56 | 3 | |||||||
|
genetics Resource Report Resource Website 1+ mentions |
genetics (RRID:SCR_024279) | software resource, software toolkit | Software R package for handling genetic data. Includes classes to represent genotypes and haplotypes at single markers up to multiple markers on multiple chromosomes. Function include allele frequencies, flagging homo/heterozygotes, flagging carriers of certain alleles, estimating and testing for Hardy-Weinberg disequilibrium, estimating and testing for linkage disequilibrium. | handling genetic data, allele frequencies, flagging homo/heterozygotes, flagging carriers of certain alleles, estimating and testing for Hardy-Weinberg disequilibrium, estimating and testing for linkage disequilibrium, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-genetics/ | SCR_024279 | 2026-08-21 12:42:51 | 3 | |||||||||
|
PhySamp Resource Report Resource Website 1+ mentions |
PhySamp (RRID:SCR_024159) | software library, software resource, software toolkit | Software package dedicated to phylogenetic sampling. Used to sample sequence alignment according to its corresponding phylogenetic tree. | phylogenetic sampling, sample sequence alignment, corresponding phylogenetic tree, | is listed by: Debian | PMID:26055961 | Free, Available for download, Freely available, | OMICS_21686 | https://sources.debian.org/src/physamp/ | SCR_024159 | physamp | 2026-08-21 12:42:49 | 1 | ||||||
|
biwt Resource Report Resource Website |
biwt (RRID:SCR_024271) | software resource, software toolkit | 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 | 2026-08-21 12:42:58 | 0 | ||||||||
|
Epi Resource Report Resource Website 1+ mentions |
Epi (RRID:SCR_024272) | software resource, software toolkit | 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 | 2026-08-21 12:42:52 | 1 | ||||||||
|
ParsInsert Resource Report Resource Website |
ParsInsert (RRID:SCR_024163) | software library, software resource, software toolkit | Software C++ implementation of Parsimonious Insertion algorithm. Used to produce phylogenetic tree and taxonomic classification for sequences for microbial community sequence analysis. | Parsimonious Insertion, unclassified sequences, phylogenetic tree, produce phylogenetic tree, produce taxonomic classification, produce sequences, microbial community sequence analysis, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_21460 | https://sources.debian.org/src/parsinsert/ | SCR_024163 | parsinsert | 2026-08-21 12:42:50 | 0 | |||||||
|
python-bx Resource Report Resource Website 10+ mentions |
python-bx (RRID:SCR_024202) | software library, software resource, software toolkit | Software Python library and associated set of scripts for rapid implementation of genome scale analyses. | rapid implementation of genome scale analyses, | is listed by: Debian | OMICS_18239 | https://sources.debian.org/src/python3-bx/ | SCR_024202 | 2026-08-21 12:42:50 | 49 | |||||||||
|
dynamicTreeCut Resource Report Resource Website 1+ mentions |
dynamicTreeCut (RRID:SCR_024280) | software resource, software toolkit | Software R package contains methods for detection of clusters in hierarchical clustering dendrograms. | clusters detection, hierarchical clustering dendrograms, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_23803 | https://sources.debian.org/src/r-cran-dynamictreecut/ | SCR_024280 | r-cran-dynamictreecut, dynamicTreeCut: Methods for Detection of Clusters in Hierarchical Clustering Dendrograms | 2026-08-21 12:42:58 | 6 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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