Alternatives and similar repositories for pyencoded-tools

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

• ENCODE-DCC / encoded
  Metadata database for ENCODE project
  ☆114Updated this week
• ENCODE-DCC / demo-pipeline
  ☆11Updated 4 years ago
• 4dn-dcic / pairix
  1D/2D indexing and querying on bgzipped text file with a pair of genomic coordinates
  ☆92Updated last year
• ncbi / ngs
  NGS Language Bindings
  ☆120Updated 2 years ago
• lidaof / eg-react
  WashU Epigenome Browser
  ☆76Updated 10 months ago
• ewels / nf-core-rnaseq
  See the main fork of this repository here >>>
  ☆39Updated 3 weeks ago
• Oshlack / JAFFA
  JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions
  ☆105Updated 2 months ago
• Chrom3D / Chrom3D
  ☆52Updated 2 years ago
• nunofonseca / irap
  integrated RNA-seq Analysis Pipeline
  ☆84Updated 7 years ago
• YeoLab / outrigger
  Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data
  ☆67Updated 5 years ago
• nf-core / hic
  Analysis of Chromosome Conformation Capture data (Hi-C)
  ☆104Updated 2 months ago
• The-Sequence-Ontology / SO-Ontologies
  Collect of SO Ontologies
  ☆102Updated 4 months ago
• 3DGenomes / TADbit
  TADbit is a complete Python library to deal with all steps to analyze, model and explore 3C-based data. With TADbit the user can map FAST…
  ☆108Updated 2 months ago
• genome-in-a-bottle / giab_tools_methods
  This repository contains a list of tools or methods that have been used in GIAB analysis
  ☆29Updated 6 years ago
• alyssafrazee / ballgown
  Bioconductor package "ballgown", devel version. Isoform-level differential expression analysis in R.
  ☆148Updated 4 years ago
• PacificBiosciences / HiFi-human-WGS-WDL
  ☆75Updated 3 weeks ago
• open2c / cooltools
  The tools for your .cool's
  ☆160Updated 6 months ago
• openwdl / learn-wdl
  Educational materials for learning WDL
  ☆131Updated last year
• aidenlab / JuiceboxLegacy
  OLD REPOSITORY - Go to
  ☆31Updated 8 years ago
• dcjones / fastq-tools
  Small utilities for working with fastq sequence files.
  ☆123Updated 3 years ago
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆99Updated last year
• NCBI-Hackathons / Community_Software_Tools_for_NGS
  ☆63Updated 9 years ago
• stjude / CICERO
  CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.
  ☆41Updated 2 months ago
• seppinho / mutserve
  mtDNA Variant Caller
  ☆35Updated last year
• hyunhwan-bcm / SalmonTE
  SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances
  ☆92Updated 3 years ago
• TheJacksonLaboratory / jds-nf-workflows
  The Jackson Laboratory Data Science Nextflow based analysis workflows
  ☆25Updated 2 months ago
• CGATOxford / cgat
  Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps
  ☆124Updated 7 years ago
• pgxcentre / genipe
  Genome-wide imputation pipeline
  ☆31Updated last year
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆82Updated 11 months ago
• ngsutils / ngsutils
  Tools for next-generation sequencing analysis
  ☆89Updated 6 years ago