Alternatives and similar repositories for pysamstats:

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

• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆216Updated 9 months ago
• parklab / bamsnap
  ☆120Updated 5 months ago
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆198Updated last year
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆158Updated 2 years ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆149Updated 2 years ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆245Updated last month
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆159Updated 8 months ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆131Updated 4 years ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆137Updated 3 years ago
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• epi2me-labs / wf-transcriptomes
  ☆91Updated 3 weeks ago
• biocorecrg / master_of_pores
  Nextflow pipeline for analysis of direct RNA Nanopore reads
  ☆102Updated last week
• adamewing / methylartist
  Tools for plotting methylation data in various ways
  ☆147Updated 2 weeks ago
• brentp / bwa-meth
  fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome
  ☆148Updated 8 months ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆149Updated 2 months ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆145Updated 2 months ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆141Updated 2 years ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆124Updated 8 months ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆211Updated 4 months ago
• epi2me-labs / wf-human-variation
  ☆121Updated 3 weeks ago
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆250Updated 10 months ago
• GoekeLab / sg-nex-data
  Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
  ☆127Updated 3 months ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆212Updated 3 weeks ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆140Updated 3 weeks ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆185Updated 11 months ago
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆170Updated 10 months ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• PacificBiosciences / DevNet
  The DevNet project on github stores the PacBio DevNet website.
  ☆116Updated 6 years ago