Alternatives and similar repositories for echtvar:

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

• 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 / bamsnap
  ☆120Updated 6 months ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• nf-core / oncoanalyser
  A comprehensive cancer DNA/RNA analysis and reporting pipeline
  ☆69Updated this week
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆159Updated 8 months ago
• geocarvalho / sv-cnv-studies
  Relevant papers for CNV and SV approaches
  ☆94Updated 6 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆187Updated this week
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆101Updated 6 months ago
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• GoekeLab / sg-nex-data
  Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
  ☆128Updated 3 months ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆114Updated 9 months ago
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆128Updated last week
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆140Updated 3 weeks ago
• sstadick / perbase
  Per-base per-nucleotide depth analysis
  ☆127Updated 3 months ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆123Updated 2 years ago
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆85Updated 6 years ago
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆141Updated 2 years ago
• nf-core / smrnaseq
  A small-RNA sequencing analysis pipeline
  ☆84Updated last week
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆149Updated 2 months ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆158Updated 2 years ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆217Updated this week
• epi2me-labs / wf-human-variation
  ☆122Updated this week
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆132Updated 10 months ago
• gencorefacility / variant-calling-pipeline-gatk4
  Variant Calling Pipeline Using GATK4 and Nextflow
  ☆54Updated 2 years ago
• nf-core / differentialabundance
  Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
  ☆78Updated this week
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆252Updated 2 months ago
• biocore-ntnu / epic2
  Ultraperformant reimplementation of SICER
  ☆56Updated 3 years ago
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆145Updated 2 years ago
• Illumina / ExpansionHunterDenovo
  A suite of tools for detecting expansions of short tandem repeats
  ☆80Updated last year