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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Menden, Kevin; Kast, Tristan; Hörtenhuber, Matthias; Ewels, Philip A.; +2 Authors

    nf-core/cageseq is a bioinformatics analysis pipeline used for CAGE-seq sequencing data.

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    bio.tools
    Software . 2021
    License: MIT
    Data sources: bio.tools
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ bio.toolsarrow_drop_down
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      bio.tools
      Software . 2021
      License: MIT
      Data sources: bio.tools
  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Lenaerts, Tom;

    Digenic Diseases Database (DiDA) provides detailed information on genes and associated genetic variants involved in digenic diseases, the simplest form of oligogenic inheritance.

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    bio.tools
    Software . 2016
    License: CC-BY-NC-4.0
    Data sources: bio.tools
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ bio.toolsarrow_drop_down
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      bio.tools
      Software . 2016
      License: CC-BY-NC-4.0
      Data sources: bio.tools
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    Authors: Hernandez-Ferrer, Carles; Gonzalez, Juan R.;

    Package that allows to explore the exposome and to perform association analyses between exposures and health outcomes.

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    bio.tools
    Software . 2018
    License: MIT
    Data sources: bio.tools
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      bio.tools
      Software . 2018
      License: MIT
      Data sources: bio.tools
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    Authors: Tosatto, Silvio C. E.;

    Database of protein disorder and mobility annotations.

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    bio.tools
    Software . 2015
    License: CC-BY-4.0
    Data sources: bio.tools
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      bio.tools
      Software . 2015
      License: CC-BY-4.0
      Data sources: bio.tools
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    Authors: Patel, Harshil; Ewels, Philip A.; Garcia, Maxime U.; Espinosa-Carrasco, Jose;

    nfcore/atacseq is a bioinformatics analysis pipeline used for ATAC-seq data.

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    bio.tools
    Software . 2021
    License: MIT
    Data sources: bio.tools
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ bio.toolsarrow_drop_down
      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
      bio.tools
      Software . 2021
      License: MIT
      Data sources: bio.tools
  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Vetrovsky, Tomas;

    User interface to data from high-throughput sequencing studies of fungal communities across terrestrial biomes. Includes sequencing data, sample locations, sample metadata.

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    bio.tools
    Software . 2020
    License: CC-BY-4.0
    Data sources: bio.tools
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ bio.toolsarrow_drop_down
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      bio.tools
      Software . 2020
      License: CC-BY-4.0
      Data sources: bio.tools
  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Ezer, Daphne;

    NITPicker (Next Iteration Time-point Picker) selects optimal time points (or spatial points along a single axis), that eliminates some of the biases caused by human decision-making, while maximising information about the shape of the underlying curves.

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    bio.tools
    Software . 2019
    License: GPL-3.0
    Data sources: bio.tools
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      bio.tools
      Software . 2019
      License: GPL-3.0
      Data sources: bio.tools
  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Servant, Nicolas; Ewels, Philip A.; Garcia, Maxime U.; Espinosa-Carrasco, Jose;

    This pipeline is based on the HiC-Pro workflow. It was designed to process Hi-C data from raw FastQ files (paired-end Illumina data) to normalized contact maps. The current version supports most protocols, including digestion protocols as well as protocols that do not require restriction enzymes such as DNase Hi-C. In practice, this workflow was successfully applied to many data-sets including dilution Hi-C, in situ Hi-C, DNase Hi-C, Micro-C, capture-C, capture Hi-C or HiChip data.

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    bio.tools
    Software . 2021
    License: MIT
    Data sources: bio.tools
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      bio.tools
      Software . 2021
      License: MIT
      Data sources: bio.tools
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    Authors: Kong, Sek Won;

    WEScover is a novel web application that provides an interface for discovering breadth and depth of coverage across population scale WES datasets, searching either by phenotype, by targeted gene panels and by genes. Moreover, the application shows metrics from the Genome Aggregation Database (gnomAD) to provide gene-centric view on breadth of coverage. Through the efficent querying of genes and phenotypes for exome coverage of associated exons, WEScover provides recommendations for gene panel tests of genes that are not well covered by whole exome sequencing.

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    bio.tools
    Software . 2022
    License: MIT
    Data sources: bio.tools
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      bio.tools
      Software . 2022
      License: MIT
      Data sources: bio.tools
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    Authors: Brysbaert, G.;

    Combines centrality analyses of Residue Interaction Networks (RIN) with DynaMine flexibility predictions.

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    bio.tools
    Software . 2019
    Data sources: bio.tools
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      bio.tools
      Software . 2019
      Data sources: bio.tools
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    Authors: Varona, Sarai; Monzón, Sara; Patel, Harshil; Ewels, Philip A.; +2 Authors

    nfcore/viralrecon is a bioinformatics analysis pipeline used to perform assembly and intra-host/low-frequency variant calling for viral samples. The pipeline supports short-read Illumina sequencing data from both shotgun (e.g. sequencing directly from clinical samples) and enrichment-based library preparation methods (e.g. amplicon-based: ARTIC SARS-CoV-2 enrichment protocol; or probe-capture-based).

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    bio.tools
    Software . 2021
    License: MIT
    Data sources: bio.tools
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      bio.tools
      Software . 2021
      License: MIT
      Data sources: bio.tools
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    Authors: Wermeling, Fredrik;

    Web-based tool that rapidly designs custom CRISPR screens targeting sets of genes defined by the user.

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    bio.tools
    Software . 2019
    License: Unlicense
    Data sources: bio.tools
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      bio.tools
      Software . 2019
      License: Unlicense
      Data sources: bio.tools
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    Authors: form, GTEx contact;

    Genotype-Tissue Expression (GTEx) - database which helps to study the relationship between genetic variation and gene expression in human tissues.

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    bio.tools
    Software . 2017
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      bio.tools
      Software . 2017
      Data sources: bio.tools
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    Authors: Wang, Chuan; Ewels, Philip A.; Hammaren, Rickard; Pantano, Lorena; +2 Authors

    nf-core/smrnaseq is a bioinformatics best-practice analysis pipeline used for small RNA sequencing data.

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    bio.tools
    Software . 2021
    License: MIT
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      bio.tools
      Software . 2021
      License: MIT
      Data sources: bio.tools
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    Authors: Liu, Eric Minwei;

    CompositeDriver combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers

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    bio.tools
    Software . 2019
    License: CC-BY-4.0
    Data sources: bio.tools
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      bio.tools
      Software . 2019
      License: CC-BY-4.0
      Data sources: bio.tools
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    Authors: Armond, Jonathan W.;

    Kinetochore Tracking (KiT) is an open-source software package for tracking kinetochores from live-cell fluorescent movies.

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    bio.tools
    Software . 2018
    License: GPL-3.0
    Data sources: bio.tools
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      bio.tools
      Software . 2018
      License: GPL-3.0
      Data sources: bio.tools
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    Authors: Vranken, Wim; Roca-Martinez, Joel;

    RRMScorer provides quick predictions for any RNA recognition motif (RRM) and any RNA target purely based on their sequences.

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    bio.tools
    Software . 2023
    License: GPL-3.0
    Data sources: bio.tools
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      bio.tools
      Software . 2023
      License: GPL-3.0
      Data sources: bio.tools
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    Authors: Rubino, Francisco Pantano; Gaya, Judith Flo;

    Analysis of small RNA sequencing data. It detect unit of transcription over the genome, annotate them and create an HTML interactive report that helps to explore the data quickly.

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    bio.tools
    Software . 2016
    License: MIT
    Data sources: bio.tools
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      bio.tools
      Software . 2016
      License: MIT
      Data sources: bio.tools
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    Authors: Notredame, Cedric;

    A collection of tools for computing, evaluating and manipulating multiple alignments of DNA, RNA, protein sequences and structures. Includes M-Coffee, R-Coffee, Expresso, PSI-Coffee, iRMSD-APDB.

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    bio.tools
    Software . 2017
    Data sources: bio.tools
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      bio.tools
      Software . 2017
      Data sources: bio.tools
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    Authors: Laboratory, The Jackson;

    Generator of probes for capture Hi-C experiments at high resolution.

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    bio.tools
    Software . 2019
    License: Other
    Data sources: bio.tools
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      bio.tools
      Software . 2019
      License: Other
      Data sources: bio.tools
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Menden, Kevin; Kast, Tristan; Hörtenhuber, Matthias; Ewels, Philip A.; +2 Authors

    nf-core/cageseq is a bioinformatics analysis pipeline used for CAGE-seq sequencing data.

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    bio.tools
    Software . 2021
    License: MIT
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      bio.tools
      Software . 2021
      License: MIT
      Data sources: bio.tools
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    Authors: Lenaerts, Tom;

    Digenic Diseases Database (DiDA) provides detailed information on genes and associated genetic variants involved in digenic diseases, the simplest form of oligogenic inheritance.

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    bio.tools
    Software . 2016
    License: CC-BY-NC-4.0
    Data sources: bio.tools
    0
    citations0
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