Alternatives and similar repositories for pybam

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

• Kingsford-Group / scallop
  Scallop is a reference-based transcriptome assembler for RNA-seq
  ☆91Updated 4 years ago
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆86Updated 7 years ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆142Updated 2 months ago
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated 5 months ago
• smithlabcode / preseq
  Software for predicting library complexity and genome coverage in high-throughput sequencing.
  ☆88Updated last year
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆116Updated last year
• lh3 / bfc
  High-performance error correction for Illumina resequencing data
  ☆73Updated 9 years ago
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆79Updated 2 years ago
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 7 years ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆81Updated 9 months ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆98Updated last year
• jdidion / atropos
  An NGS read trimming tool that is specific, sensitive, and speedy. (production)
  ☆125Updated 6 months ago
• MikkelSchubert / adapterremoval
  AdapterRemoval v2 - rapid adapter trimming, identification, and read merging
  ☆113Updated this week
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆108Updated 2 weeks ago
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆103Updated 4 years ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆150Updated last week
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆113Updated last year
• zstephens / neat-genreads
  NEAT read simulation tools
  ☆101Updated 3 years ago
• MultiQC / MegaQC
  Web application to collect and visualise data across multiple MultiQC runs.
  ☆95Updated 10 months ago
• relipmoc / skewer
  ☆95Updated 3 years ago
• parklab / bamsnap
  ☆123Updated 2 months ago
• giesselmann / nanopype
  Snakemake pipelines for nanopore sequencing data archiving and processing
  ☆91Updated 3 years ago
• Oshlack / Corset
  Software for clustering de novo assembled transcripts and counting overlapping reads
  ☆74Updated 3 years ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 8 months ago
• COMBINE-lab / RapMap
  Rapid sensitive and accurate read mapping via quasi-mapping
  ☆89Updated 5 years ago
• Illumina / Pisces
  Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.
  ☆98Updated 3 years ago
• Zhong-Lab-UCSD / Genomic-Interactive-Visualization-Engine
  Genomic Interactive Visualization Engine
  ☆145Updated 2 years ago
• lh3 / CHM-eval
  ☆54Updated 5 years ago
• refgenie / refgenie
  Reference genome resource manager
  ☆74Updated last year
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago