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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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DeepPoseKit Resource Report Resource Website 1+ mentions |
DeepPoseKit (RRID:SCR_021405) | software toolkit, software resource | Software toolkit with high level API for 2D pose estimation of user defined keypoints using deep learning.Written in Python and built using Tensorflow and Keras.Method for pose estimation developed by behavioral scientists at the Max Planck Institute of Animal Behavior. | 2D pose estimation, animal pose estimation, animal behavior, DeepLabCut, Leap, OpenBehavior |
is listed by: OpenBehavior is related to: DeepPoseKit project |
DOI:10.7554/elife.47994 | Free, Available for download, Freely Available | https://edspace.american.edu/openbehavior/project/deepposekit/ | SCR_021405 | 2026-08-09 09:07:57 | 2 | ||||||||
|
Neurokit2 Resource Report Resource Website 100+ mentions |
Neurokit2 (RRID:SCR_021889) | software toolkit, software resource | Software Python package for neurophysiological signal processing. Used to analyze physiological data. | neurophysiological signal processing, analyze physiological data | PMID:33528817 | Free, Available for download, Freely available | https://github.com/neuropsychology/NeuroKit | SCR_021889 | 2026-08-09 09:08:18 | 111 | |||||||||
|
DeepSqueak Resource Report Resource Website 10+ mentions |
DeepSqueak (RRID:SCR_021524) | software toolkit, software resource | Software MATLAB package for high throughput ultrasonic vocalizations detection, classification, and analysis. | data quantification, ultrasonic vocalizations quantification, ultrasonic vocalization, OpenBehavior |
is listed by: OpenBehavior is related to: DeepSqueak project |
DOI:10.1038/s41386-018-0303-6 | Free, Available for download, Freely Available | https://edspace.american.edu/openbehavior/project/deepsqueak/ | SCR_021524 | 2026-08-09 09:08:00 | 15 | ||||||||
|
Cell Type Knowledge Explorer Resource Report Resource Website 1+ mentions |
Cell Type Knowledge Explorer (RRID:SCR_022793) | software application, software resource | Software application to examine multimodal data from thousands of cells across 3 mammalian species. | Allen Brain Map, Cell Type Taxonomies, examine multimodal data, cells across mammalian species |
is related to: Common Cell Type Nomenclature is provided by: BICCN is organization facet of: BICCN |
Free, Freely available | SCR_022793 | Allen Brain Map Cell Type Knowledge Explorer | 2026-08-09 09:08:27 | 4 | |||||||||
|
mBrainAligner Resource Report Resource Website 1+ mentions |
mBrainAligner (RRID:SCR_022791) | software toolkit, software resource | Software package provides cross modality image registration pipeline to support whole brain mapping projects. Contains three modules: (1) image preprocessing and global registration, (2) Coherent Landmark Mapping (CLM) based automatic registration, and (3) optional semi-automatic refinement. | cross modality image registration, whole brain mapping, image registration |
is provided by: BICCN is organization facet of: BICCN |
Southeast University ; NSFC ; University Synergy Innovation Program of Anhui Province ; NSFC-Guangdong Joint Fund ; Fundamental Research Funds |
PMID:34887551 | Free, Available for download, Freely available | SCR_022791 | 2026-08-09 09:08:24 | 3 | ||||||||
|
Inquisit LAB Resource Report Resource Website 1+ mentions |
Inquisit LAB (RRID:SCR_022151) | software application, software resource | Software tool for designing and administering psychological tests and experiments on computers. | Millisecond Software, designing psychological tests, administering psychological tests, psychological experiments on computers | Restricted | SCR_022151 | Inquisit 6 LAB, Inquisit 5 LAB | 2026-08-09 09:08:10 | 2 | ||||||||||
|
scDblFinder Resource Report Resource Website 100+ mentions |
scDblFinder (RRID:SCR_022700) | software toolkit, software resource | Software package for detection and handling of doublets/multiplets in single cell sequencing data. | single cell sequencing data, doublets detection, multiplets detection, single cell, sequencing data | PMID:35814628 | Free, Available for download, Freely available | https://bioconductor.org/packages/scDblFinder/ | SCR_022700 | 2026-08-09 09:08:22 | 174 | |||||||||
|
PreprintMatch Resource Report Resource Website 1+ mentions |
PreprintMatch (RRID:SCR_022302) | software application, software resource | Software tool to match bioRxiv preprints with their corresponding PubMed paper. | match bioRxiv preprints, corresponding PubMed papers | Restricted | SCR_022302 | 2026-08-09 09:07:52 | 1 | |||||||||||
|
insane.py Resource Report Resource Website 1+ mentions |
insane.py (RRID:SCR_022317) | software application, software resource | Software tool for generating custom membranes for molecular simulations. Software Python script to setup Martini bilayer systems. | Generating custom membranes, molecular simulations, Martini bilayer system | DOI:10.1021/acs.jctc.5b00209 | Free, Available for download, Freely available | SCR_022317 | 2026-08-09 09:08:13 | 1 | ||||||||||
|
reshape2 Resource Report Resource Website 10+ mentions |
reshape2 (RRID:SCR_022679) | software toolkit, software resource | Software R package to flexible rearrange, reshape and aggregate data. Reshape2 is reboot of reshape package. | flexible rearrange data, reshape data, aggregate data |
is listed by: CRAN is related to: reshape is related to: R Project for Statistical Computing |
Free, Available for download, Freely available | SCR_022679 | 2026-08-09 09:08:26 | 21 | ||||||||||
|
Peptides Resource Report Resource Website 10+ mentions |
Peptides (RRID:SCR_022675) | software toolkit, software resource | Software R package to calculate indices and theoretical physicochemical properties of peptides and protein sequences. | physicochemical properties and indices calculations, amino acid sequences, amino acid physiochemical properties calculations |
is listed by: CRAN is related to: R Project for Statistical Computing |
Free, Available for download, Freely available | https://github.com/dosorio/Peptides/ | SCR_022675 | 2026-08-09 09:08:21 | 11 | |||||||||
|
Epiviz Resource Report Resource Website 1+ mentions |
Epiviz (RRID:SCR_022796) | software toolkit, software resource | Software package as interactive visualization tool for functional genomics data. Interactive visual analytics for functional genomics data. | Interactive visual analytics, functional genomics data, interactive visualization tool | is provided by: BICCN | NHGRI R01 HG006102; NHGRI R01 HG005220; Illumina Corporation ; Genentech |
PMID:25086505 | Free, Available for download, Freely available | https://bioconductor.org/packages/epivizr/, https://epiviz.github.io/ | SCR_022796 | 2026-08-09 09:08:27 | 1 | |||||||
|
ggeffects Resource Report Resource Website 1+ mentions |
ggeffects (RRID:SCR_022496) | software toolkit, software resource | Software R package to create tidy data frames of marginal effects for ggplot from model outputs. Used to compute marginal effects and adjusted predictions from statistical models and returns result as tidy data frames. | Create tidy data frames of marginal effects, compute marginal effects, adjusted predictions, statistical models, tidy data frame |
is used by: ggplot2 is related to: CRAN |
Free, Available for download, Freely available | SCR_022496 | 2026-08-09 09:08:17 | 5 | ||||||||||
|
Betareg Resource Report Resource Website 1+ mentions |
Betareg (RRID:SCR_022494) | software toolkit, software resource | Software R package for modeling beta distributed dependent variables, e.g., rates and proportions. In addition to maximum likelihood regression (for both mean and precision of beta distributed response), bias corrected and bias reduced estimation as well as finite mixture models and recursive partitioning for beta regressions are provided. | Beta regression, modeling beta distributed dependent variables, rates and proportions |
is related to: CRAN is related to: R Project for Statistical Computing |
DOI:10.18637/jss.v034.i02 | Free, Available for download, Freely available | SCR_022494 | 2026-08-09 09:08:23 | 2 | |||||||||
|
monaLisa Resource Report Resource Website 1+ mentions |
monaLisa (RRID:SCR_022802) | software toolkit, software resource | Software R package to work with sequence motifs in analysis of genomics data. These include methods to annotate genomic regions or sequences with predicted motif hits and to identify motifs that drive observed changes in accessibility or expression. Functions to produce informative visualizations of obtained results are also provided. | sequence motifs, analysis of genomics data, annotate genomic regions or sequences, predicted motif hits, identify motifs | is related to: R Project for Statistical Computing | Novartis Research Foundation ; Swiss National Science Foundation ; European Research Council |
PMID:35199152 | Free, Available for download, Freely available | https://github.com/fmicompbio/monaLisa | SCR_022802 | 2026-08-09 09:08:27 | 2 | |||||||
|
TMExplorer Resource Report Resource Website |
TMExplorer (RRID:SCR_022768) | software toolkit, software resource | Software package to improve studying tumour microenvironment with single cell sequencing. Developers may use this package to obtain data for validation of new algorithms and researchers interested in tumour microenvironment may use it to study specific cancers more closely. Curated collection of scRNAseq datasets sequenced from tumours. | Curated collection of scRNAseq datasets, scRNAseq datasets sequenced from tumours, improve studying tumour microenvironment, single cell sequencing, | Free, Available for download, Freely available | SCR_022768 | Tumour Microenvironment Explorer | 2026-08-09 09:08:23 | 0 | ||||||||||
|
TALOS-N Resource Report Resource Website 1+ mentions |
TALOS-N (RRID:SCR_022800) | software toolkit, software resource | Software package for prediction of protein backbone and sidechain torsion angles from NMR chemical shifts. | Prediction of protein backbone, sidechain torsion angles, NMR chemical shifts | NIDDK | PMID:23728592 | Free, Available for download, Freely available | SCR_022800 | 2026-08-09 09:08:24 | 3 | |||||||||
|
Classification And Regression Training Resource Report Resource Website 50+ mentions |
Classification And Regression Training (RRID:SCR_022524) | caret | software toolkit, software resource | Software R package that contains functions for training and plotting classification and regression models. Includes methods for pre-processing training data, calculating variable importance, and model visualizations. | training and plotting classification and regression models, pre-processing training data, calculating variable importance, model visualizations. |
is related to: CRAN is related to: R Project for Statistical Computing |
DOI:10.18637/jss.v028.i05 | Free, Available for download, Freely available | https://cran.r-project.org/web/packages/caret/ | SCR_022524 | Classification And REgression Training | 2026-08-09 09:08:24 | 54 | ||||||
|
Radiant Resource Report Resource Website 1+ mentions |
Radiant (RRID:SCR_022645) | software toolkit, software resource | Software tool used to control Plexon pattern generator for optogenetic stimulation. | control Plexon pattern generator, optogenetic stimulation, Plexon Inc. | Free, Available for download, Freely available | SCR_022645 | Radiant v2.3, Radiant v2.2 | 2026-08-09 09:08:21 | 3 | ||||||||||
|
simplePHENOTYPES Resource Report Resource Website 1+ mentions |
simplePHENOTYPES (RRID:SCR_022523) | software toolkit, software resource | Software R package that simulates pleiotropy, partial pleiotropy, and spurious pleiotropy in wide range of genetic architectures, including additive, dominance and epistatic models. Used to simulate multiple traits controlled by loci with varying degrees of pleiotropy. | Multiple traits simulation, pleiotropy, partial pleiotropy, spurious pleiotropy, causal mutations affecting multiple traits |
is related to: CRAN is related to: R Project for Statistical Computing |
NSF 1733606 | PMID:33129253 | Free, Available for download, Freely available | https://github.com/samuelbfernandes/simplePHENOTYPES | SCR_022523 | Simulation of Pleiotropic, Linked and Epistatic Phenotypes | 2026-08-09 09:08:18 | 2 |
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