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on page 1 showing 13 out of 13 results

    AmiGO

Cite this (AmiGO, RRID:SCR_002143)

URL: http://amigo.geneontology.org/

Resource Type: Resource, data analysis service, production service resource, analysis service resource, database, service resource, data or information resource

Web tool to search, sort, analyze, visualize and download data of interest. Along with providing details of the ontologies, gene products and annotations, features a BLAST search, Term Enrichment and GO Slimmer tools, the GO Online SQL Environment and a user help guide.Used at the Gene Ontology (GO) website to access the data provided by the GO Consortium. Developed and maintained by the GO Consortium.

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    DREME

Cite this (DREME, RRID:SCR_016860)

URL: http://meme-suite.org/tools/dreme

Resource Type: Resource, analysis service resource, data analysis service, service resource, production service resource

Software tool to discover short, ungapped motifs (recurring, fixed-length patterns) that are relatively enriched in sequences compared with shuffled sequences or control sequences (sample output from sequences).

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    FoXS

Cite this (FoXS, RRID:SCR_017269)

URL: https://modbase.compbio.ucsf.edu/foxs/

Resource Type: Resource, data access protocol, production service resource, web service, analysis service resource, service resource, software resource

Web server for computing theoretical scattering profile of structure and fitting of experimental profile. Computes SAXS profile of given atomistic model and fits it to experimental profile. Used for structural modeling applications with small angle X-ray scattering data.

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Cite this (Fractalis, RRID:SCR_016362)

URL: https://fractalis.lcsb.uni.lu/

Resource Type: Resource, data analysis service, data processing software, software library, data access protocol, production service resource, analysis service resource, software application, data visualization software, web service, service resource, software resource, software toolkit

Software as a scalable open-source service for platform-independent interactive visual analysis of biomedical data. It is a service and a library that work in tandem to equip existing platforms with visual analytical capabilities for explorative data analysis.

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    ImmuneDB

Cite this (ImmuneDB, RRID:SCR_017125)

URL: https://immunedb.readthedocs.io/en/latest/

Resource Type: Resource, data analysis service, production service resource, analysis service resource, database, service resource, data or information resource

Software system for storing and analyzing high throughput B and T cell immune receptor sequencing data. Comprised of web interface and of Python analysis tools to process raw reads for gene usage, infer clones, aggregate data, and run downstream analyses, or in conjunction with other AIRR tools using its import and export features.

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Cite this (InterProScan, RRID:SCR_005829)

URL: http://www.ebi.ac.uk/Tools/pfa/iprscan/

Resource Type: Resource, data analysis service, data analysis software, data processing software, data access protocol, production service resource, analysis service resource, software application, web service, service resource, software resource

Software package for functional analysis of sequences by classifying them into families and predicting presence of domains and sites. Scans sequences against InterPro's signatures. Characterizes nucleotide or protein function by matching it with models from several different databases. Used in large scale analysis of whole proteomes, genomes and metagenomes. Available as Web based version and standalone Perl version and SOAP Web Service.

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Cite this (MetaboAnalyst, RRID:SCR_015539)

URL: https://www.metaboanalyst.ca/

Resource Type: Resource, data analysis service, data access protocol, production service resource, analysis service resource, web service, service resource, software resource

Web server for statistical, functional and integrative analysis of metabolomics data. Web based tool suite used for metabolomic data processing, normalization, multivariate statistical analysis, and data annotation, biomarker discovery and classification.

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    NanoPipe

Cite this (NanoPipe, RRID:SCR_016852)

URL: http://bioinformatics.uni-muenster.de/tools/nanopipe2

Resource Type: Resource, data analysis service, data access protocol, production service resource, web service, analysis service resource, service resource, software resource

Web tool for analysis of MinION (ONT) long sequencing reads. Used for analysis of reads generated by the Oxford Nanopore sequencing devices. Provides alignments to any target of interest, alignment statistics and information about polymorphisms.

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    Nephele

Cite this (Nephele, RRID:SCR_016595)

URL: https://nephele.niaid.nih.gov

Resource Type: Resource, data analysis service, production service resource, analysis service resource, web application, service resource, software resource

Cloud based platform for simplified, standardized and reproducible microbiome data analysis. Allows users to process microbiome datasets through pipelines of existing software tools.

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Cite this (Open Reading Frame Finder, RRID:SCR_016643)

URL: https://www.ncbi.nlm.nih.gov/orffinder

Resource Type: Resource, data analysis software, data processing software, production service resource, analysis service resource, software application, sequence analysis software, service resource, software resource

Software tool to search for open reading frames (ORFs) in the DNA sequence. The program returns the range of each ORF, along with its protein translation. Used to search newly sequenced DNA for potential protein encoding segments, verify predicted protein. Limited to the subrange of the query sequence up to 50 kb long.

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    redbiom

Cite this (redbiom, RRID:SCR_017285)

URL: https://github.com/biocore/redbiom

Resource Type: Resource, data analysis service, data analysis software, data processing software, production service resource, analysis service resource, software application, service resource, software resource

Software tool for allowing samples that contain microbiome features to be rapidly identified. Rapid sample discovery and feature characterization system. Integrated with existing analysis tools to enable fast, large scale microbiome searches and discovery of new microbiome relationships. Service for sample metadata and sample data.

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    tenx

Cite this (tenx, RRID:SCR_016957)

URL: https://github.com/sansomlab/tenx

Resource Type: Resource, data analysis service, production service resource, analysis service resource, service resource, software resource, software toolkit

Pipeline for the analysis of 10x single cell RNA sequencing data. Collection of python3 pipelines and Rscripts to analyze data generated with the 10x Genomics platform. The pipelines are based on 10x's Cell Ranger pipeline for mapping and quantitation and the R Seurat package for downstream analysis.

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    TRIAGE

Cite this (TRIAGE, RRID:SCR_016609)

URL: https://triage.niaid.nih.gov

Resource Type: Resource, data analysis service, production service resource, analysis service resource, web application, service resource, software resource

Platform to facilitate prediction, analysis, and hypothesis generation from genome wide perturbation studies like those designed with RNAi and CRISPR technologies.

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