Alternatives and similar repositories for simplesam

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

• vembrane / vembrane
  vembrane filters VCF records using python expressions
  ☆60Updated this week
• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆85Updated 3 years ago
• fulcrumgenomics / fqtk
  Fast FASTQ sample demultiplexing in Rust.
  ☆62Updated last month
• lgautier / fastq-and-furious
  Efficient handling of FASTQ files from Python
  ☆51Updated last month
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆140Updated 3 weeks ago
• brentp / cigar
  simple library for dealing with SAM cigar strings
  ☆41Updated 4 years ago
• acg-team / tral
  Tandem Repeat Annotation Library
  ☆25Updated 2 years ago
• nh13 / snakeparse
  Making Snakemake workflows into full-fledged command line tools since 1999.
  ☆52Updated 7 years ago
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 2 years ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 4 months ago
• jsh58 / NGmerge
  Merging paired-end reads and removing adapters
  ☆44Updated 3 months ago
• eturro / mmseq
  Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads
  ☆68Updated last year
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• telatin / covtobed
  ⛰ covtobed | Convert the coverage track from a BAM file into a BED file
  ☆44Updated last week
• Clinical-Genomics / chanjo
  Chanjo provides a better way to analyze coverage data in clinical sequencing.
  ☆50Updated 6 months ago
• vpc-ccg / calib
  Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.
  ☆38Updated 2 years ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆79Updated 5 months ago
• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆47Updated this week
• slowkow / pytabix
  Retrieve data in genomic intervals with a Python interface for tabix.
  ☆82Updated 7 years ago
• refgenie / refgenie
  Reference genome resource manager
  ☆76Updated last year
• brentp / bw-python
  python wrapper to dpryan79's bigwig library using cffi
  ☆19Updated 9 years ago
• noamteyssier / bedrs
  bedtools-like functionality for interval sets in rust
  ☆52Updated 10 months ago
• noamteyssier / gia
  gia: Genomic Interval Arithmetic
  ☆65Updated 10 months ago
• bioinform / metasv
  MetaSV: An accurate and integrative structural-variant caller for next generation sequencing
  ☆56Updated 7 years ago
• nf-core / airrflow
  B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
  ☆64Updated 2 weeks ago
• nilesh-tawari / ChronQC
  Manuscript describing ChronQC is now available online in Bioinformatics
  ☆18Updated 6 years ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆32Updated last year
• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆35Updated last month
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated 10 months ago
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆54Updated last year