Alternatives and similar repositories for VariantNET:

Users that are interested in VariantNET are comparing it to the libraries listed below

• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 5 years ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆79Updated 11 months ago
• svviz / svviz
  Read visualizer for structural variants
  ☆81Updated 6 years ago
• Kingsford-Group / scallop
  Scallop is a reference-based transcriptome assembler for RNA-seq
  ☆89Updated 3 years ago
• parklab / bamsnap
  ☆118Updated 2 months ago
• phageghost / python-genome-browser
  Tools for making plots of genomic datasets in a genome-browser-like format
  ☆31Updated last month
• konstantint / pyliftover
  Pure-python implementation of UCSC liftOver genome coordinate conversion
  ☆92Updated 11 months ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆111Updated 6 months ago
• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆75Updated last month
• Illumina / Pisces
  Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.
  ☆96Updated 2 years ago
• mcfrith / last-rna
  ☆49Updated 2 years ago
• gymreklab / GangSTR
  A tool for profiling long STRs from short reads
  ☆94Updated 3 years ago
• genome-in-a-bottle / giab_latest_release
  This repository contains information about latest release from Genome in a Bottle project
  ☆73Updated 5 years ago
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆84Updated 6 years ago
• ratschlab / spladder
  Tool for the detection and quantification of alternative splicing events from RNA-Seq data.
  ☆106Updated 3 months ago
• NVIDIA / VariantWorks
  Deep Learning based variant calling toolkit - https://clara-parabricks.github.io/VariantWorks/
  ☆45Updated 2 years ago
• griffithlab / regtools
  Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.
  ☆124Updated 5 months ago
• genome-in-a-bottle / genome-stratifications
  Stratification BED files from the Global Alliance for Genomics and Health (GA4GH) Benchmarking Team and the Genome in a Bottle Consortium…
  ☆78Updated 2 years ago
• zstephens / neat-genreads
  NEAT read simulation tools
  ☆97Updated 2 years ago
• brentp / cruzdb
  python access to UCSC genomes database
  ☆135Updated 4 years ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆109Updated 2 years ago
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆101Updated 4 years ago
• al-mcintyre / mCaller
  A python program to call methylation (m6A in DNA) from nanopore signal data
  ☆45Updated 3 years ago
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆81Updated this week
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆137Updated 8 months ago
• PopicLab / cue
  Deep learning framework for SV calling and genotyping
  ☆103Updated last year
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆126Updated last year
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆126Updated 7 months ago
• alimanfoo / pysamstats
  A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …
  ☆193Updated 3 weeks ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆81Updated 2 years ago