Alternatives and similar repositories for ensembl-tools

Users that are interested in ensembl-tools are comparing it to the libraries listed below

• ngsutils / ngsutils
  Tools for next-generation sequencing analysis
  ☆89Updated 6 years ago
• COMBINE-lab / wasabi
  Prepare Sailfish and Salmon output for downstream analysis
  ☆42Updated 6 years ago
• arq5x / bedtools-protocols
  ☆78Updated 11 years ago
• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆84Updated 4 years ago
• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆49Updated 6 years ago
• gatk-workflows / five-dollar-genome-analysis-pipeline
  Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline
  ☆57Updated 5 years ago
• macarthur-lab / gnomad_browser
  gnomAD browser pre-ASHG 2018
  ☆33Updated 5 years ago
• nellore / rail
  Scalable RNA-seq analysis
  ☆73Updated 4 years ago
• griffithlab / rnaseq_tutorial_wiki
  The wiki repo, with pull request enabled, for the rnaseq_tutorial
  ☆26Updated 5 years ago
• slowkow / picardmetrics
  Run Picard on BAM files and collate 90 metrics into one file.
  ☆40Updated 8 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• NCBI-Hackathons / Community_Software_Tools_for_NGS
  ☆63Updated 9 years ago
• bgruening / galaxy-rna-workbench
  Galaxy RNA workbench
  ☆41Updated 5 years ago
• ewels / Labrador
  A web based tool to manage and automate the processing of publicly available datasets.
  ☆39Updated 4 years ago
• GenomiqueENS / dockerfiles
  ☆83Updated 3 years ago
• statgen / gotcloud
  Genomes on the Cloud, Mapping & Variant Calling Pipelines
  ☆33Updated 8 years ago
• s-andrews / BamQC
  Mapped QC analysis program
  ☆44Updated 7 years ago
• bahlolab / bioinfotools
  Documenting usage and experience with bioinformatic tools
  ☆40Updated 10 years ago
• SciLifeLab / NGI-RNAseq
  Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.
  ☆51Updated 7 years ago
• IARCbioinfo / needlestack
  Multi-sample somatic variant caller
  ☆52Updated 3 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• jdidion / atropos
  An NGS read trimming tool that is specific, sensitive, and speedy. (production)
  ☆126Updated 8 months ago
• Ettwiller / Damage-estimator
  Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…
  ☆54Updated 8 years ago
• relipmoc / skewer
  ☆96Updated 3 years ago
• costasilvati / consexpression
  Tool for RNA-Seq analysis.
  ☆39Updated 3 years ago
• IARCbioinfo / IARC-nf
  List of IARC bioinformatics pipelines and resources
  ☆55Updated last month
• biocore-ntnu / epic
  (DEPRECATED) epic: diffuse domain ChIP-Seq caller based on SICER
  ☆31Updated 7 years ago
• kingsfordgroup / sailfish
  Rapid Mapping-based Isoform Quantification from RNA-Seq Reads
  ☆127Updated 3 years ago
• broadinstitute / oncotator
  ☆69Updated 3 years ago
• sigven / gvanno
  Generic human DNA variant annotation pipeline
  ☆59Updated last year