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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Chromosome Scale Assembler Resource Report Resource Website 1+ mentions |
Chromosome Scale Assembler (RRID:SCR_017960) | CSA | software resource, software application | Software pipeline for high-throughput chromosome level vertebrate genome assembly. Pipeline, which after contig assembly performs post assembly improvements by ordering assembly and closing gaps, as well as splitting of low supported regions. | Assembly, chromosome, vertebrate, genome, contig, closing, gap, splitting, low, supported, region, bio.tools |
is listed by: bio.tools is listed by: Debian |
German Research foundation | Free, Available for download, Freely available | biotools:csa2.6 | https://bio.tools/CSA2.6 | SCR_017960 | Chromosome Scale Assembler | 2026-08-12 10:52:00 | 5 | |||||
|
xAtlas Resource Report Resource Website 1+ mentions |
xAtlas (RRID:SCR_022987) | software resource, software application | Software tool as variant caller for SNVs and small indels. Implemented as software application written in C++ . | Single nucleotide variants, variant caller, SNVs, small indels | has parent organization: Baylor College of Medicine Human Genome Sequencing Center | Free, Available for download, Freely available | SCR_022987 | 2026-08-12 10:52:40 | 3 | ||||||||||
|
Starr Life Sciences MouseOx Plus Resource Report Resource Website 10+ mentions |
Starr Life Sciences MouseOx Plus (RRID:SCR_022984) | software resource, software application | Software is part of MouseOx Plus pulse oximeter system. | Starr Life Sciences Corp., MouseOx Plus oximeter system, pulse oximeter | Free, Available to download | https://www.starrlifesciences.com/product/pulse-oximetry-software/ | SCR_022984 | MouseOx Plus, MOUSEOX PLUS 2.0 | 2026-08-12 10:52:49 | 11 | |||||||||
|
Jupyter-console Resource Report Resource Website 1+ mentions |
Jupyter-console (RRID:SCR_018414) | software resource, software application | Terminal based console frontend for Jupyter kernels. This code is based on single process IPython terminal. | Terminal based console, Jupyter kernel, single process IPython terminal, Jupyter Project | is related to: Jupyter-client | Free, Available for download, Freely available | SCR_018414 | Jupyter Terminal Console | 2026-08-12 10:52:08 | 2 | |||||||||
|
Golddigger Resource Report Resource Website |
Golddigger (RRID:SCR_020960) | data analytics software, software resource, software application | ImageJ macro to detect, mark and count electron dense markers like goldgrains or quantum dots in electron micrographs. | Electron dense markers, detect electron dense markers, mark electron dense markers, count electron dense markers, goldgrains, goldgrains marker, quantum dots, electron micrographs |
is related to: Nanotomy is related to: ImageJ is related to: Fiji has parent organization: University of Groningen; Groningen; Netherlands |
Free, Freely available | SCR_020960 | 2026-08-12 10:52:15 | 0 | ||||||||||
|
Python Nose Resource Report Resource Website 1+ mentions |
Python Nose (RRID:SCR_018418) | software resource, software application | Software tool to extend unittest to make testing easier. Python unit test framework. Note, Nose has been in maintenance mode for the past several years and will likely cease without a new person/team to take over maintainership. New projects should consider using Nose2, py.test, or just plain unittest/unittest2. | Testing, extend unittest | Free, Available for download, Freely available | https://github.com/nose-devs/nose/ | SCR_018418 | 2026-08-12 10:52:08 | 1 | ||||||||||
|
Google Forms Resource Report Resource Website 10+ mentions |
Google Forms (RRID:SCR_023174) | software resource, software application | Software for creating surveys and questionnaires. | creating surveys, creating questionnaires | Free, Freely available | SCR_023174 | 2026-08-12 10:52:59 | 40 | |||||||||||
|
VCF2Dis Resource Report Resource Website 10+ mentions |
VCF2Dis (RRID:SCR_022513) | data analytics software, software resource, software application | Software to calculate p-distance matrix based Variant Call Format. | calculate p-distance matrix based Variant Call Format | Free, Available for download, Freely available | SCR_022513 | 2026-08-12 10:52:44 | 22 | |||||||||||
|
Tonkaz Resource Report Resource Website 1+ mentions |
Tonkaz (RRID:SCR_023206) | software resource, software application | Software CLI tool to verify workflow reproducibility. | workflow reproducibility, workflow reproducibility verification | DOI:10.1101/2022.10.11.511695 | Free, Available for download, Freely available | SCR_023206 | 2026-08-12 10:52:51 | 1 | ||||||||||
|
Yevis cli Resource Report Resource Website 1+ mentions |
Yevis cli (RRID:SCR_023204) | software resource, software application | Software CLI tool to support building and maintaining Yevis workflow registry. | Yevis workflow registry, Yevis, workflow registry with automated quality control, | is related to: Yevis web | Free, Available for download, Freely available | https://sapporo-wes.github.io/yevis-cli/getting_started | SCR_023204 | Yevis-cli | 2026-08-12 10:52:59 | 2 | ||||||||
|
FLIC Monitor Resource Report Resource Website 1+ mentions |
FLIC Monitor (RRID:SCR_018387) | software resource, software application | Software tool as user interface for running Fly Liquid Food Interaction Counter experiments. | Monitoring FLIC experiment, monitor fly liquid food experiment, fly liquid food interaction | PMID:24978054 | Free, Available for download, Freely available | SCR_018387 | Fly Liquid Food Interaction Counter Monitor | 2026-08-12 10:52:07 | 2 | |||||||||
|
Docker based GPU enabled Jupyterlab Resource Report Resource Website 1+ mentions |
Docker based GPU enabled Jupyterlab (RRID:SCR_022695) | software resource, software application | Open source, docker based, and GPU enabled jupyterlab notebook infrastructure that runs on public compute infrastructure of Galaxy Europe for rapid prototyping and developing end-to-end AI projects. Jupyterlab notebook in GPU enabled docker container for machine learning and deep learning. | Jupyterlab, GPU enabled jupyterlab notebook infrastructure, Galaxy Europe, public compute infrastructure | is related to: Jupyter Notebook | DOI:10.1101/2022.07.08.499333 | Free, Available for download, Freely available | biotools:gpu-enabled_docker_container_with_jupyterlab_for_ai | https://bio.tools/gpu-enabled_docker_container_with_jupyterlab_for_ai | SCR_022695 | 2026-08-12 10:52:46 | 2 | |||||||
|
Pyani Resource Report Resource Website 50+ mentions |
Pyani (RRID:SCR_021088) | data analytics software, software resource, software application | Software package and script for calculation of genome scale average nucleotide identity. Python3 module that provides support for calculating average nucleotide identity and related measures for whole genome comparisons, and rendering relevant graphical summary output. Where available, it takes advantage of multicore systems, and can integrate with SGE/OGE-type job schedulers for the sequence comparisons. | Genome scale average nucleotide identity calculation, nucleotide identity calculation, nucleotide, identity calculation | Free, Available for download, Freely available | SCR_021088 | 2026-08-12 10:52:28 | 90 | |||||||||||
|
org.Rn.eg.db Resource Report Resource Website 1+ mentions |
org.Rn.eg.db (RRID:SCR_018358) | software resource, software application | Software R tool for genome wide annotation for Rat, primarily based on mapping using Entrez Gene identifiers. | Genome annotation, rat, mapping, Entrez Gene identifier | is listed by: Bioconductor | Free, Available for download, Freely available | SCR_018358 | 2026-08-12 10:52:06 | 1 | ||||||||||
|
zmax_edf_merge_converter Resource Report Resource Website |
zmax_edf_merge_converter (RRID:SCR_022567) | software resource, software application | Software tool for comprehensive conversion of folder with Hypnodyne zmax EDF files into merged European Data Format. | hypnodyne, Zmax, converter, EDF, merge, python, windows | Free, Available for download, Freely available | SCR_022567 | 2026-08-12 10:52:54 | 0 | |||||||||||
|
GeCo3 Resource Report Resource Website 1+ mentions |
GeCo3 (RRID:SCR_018877) | software resource, software application | Software tool as DNA compressor that uses neural network to do mixing of experts. | DNA compressor, neural network, expert mixing, bio.tools |
is listed by: bio.tools is listed by: Debian |
Free, Freely available | biotools:geco3 | https://bio.tools/geco3 | SCR_018877 | 2026-08-12 10:52:15 | 2 | ||||||||
|
FluCalc Resource Report Resource Website 1+ mentions |
FluCalc (RRID:SCR_019322) | data analytics software, software resource, software application | Software tool as MSS-MLE calculator for Luria–Delbrück fluctuation analysis. | Estimator, fluctuation calculation, MSS-MLE, Ma-Sandri-Sarkar Maximum Likelihood Estimator, calculator, fluctuation analysis | has parent organization: Tufts University; Massachusetts; USA | NIGMS GM105473; NIGMS GM60987 |
PMID:29043640 | Free, Available for download, Freely available | SCR_019322 | flucalc, fluctuation calculation | 2026-08-12 10:52:14 | 1 | |||||||
|
OpenSCAD Resource Report Resource Website 10+ mentions |
OpenSCAD (RRID:SCR_018870) | software resource, software application | Software tool for creating solid 3D CAD objects. Used for creating 3D models focusing on CAD aspects of 3D modeling of machine parts. Reads in script file that describes object and renders 3D model from this script file. | Creating solid 3D objects, CAD object, 3D CAD object, creating objects, creating 3D models, 3D modeling, machine part modeling | Free, Available for download, Freely available | https://github.com/openscad/openscad/ | SCR_018870 | Solid 3D CAD Modeller | 2026-08-12 10:52:14 | 23 | |||||||||
|
1KA Resource Report Resource Website 10+ mentions |
1KA (RRID:SCR_019283) | software resource, software application | Open source software application that enables services for online surveys. Provides advanced support for all steps of web survey process. Conduct research and analysis from beginning to end. | Online surveys service, web survey process support | has parent organization: University of Ljubljana; Ljubljana; Slovenia | Restricted | SCR_019283 | 2026-08-12 10:52:14 | 13 | ||||||||||
|
BayesEpiModels Resource Report Resource Website 1+ mentions |
BayesEpiModels (RRID:SCR_019291) | software resource, software application | Software tool for accessing performance of different epidemiological models, including both growth and compartmental models, in Bayesian framework. | Stochastic growth model, Stochastic SIR model, Bayesian inference, epidemiological models, bio.tools |
is listed by: bio.tools is listed by: Debian |
Free, Available for download, Freely available | biotools:bayesepimodels | https://bio.tools/bayesepimodels | SCR_019291 | 2026-08-12 10:52:25 | 1 |
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