Alternatives and similar repositories for simplesam

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

• brentp / cigar
  simple library for dealing with SAM cigar strings
  ☆41Updated 4 years ago
• nh13 / snakeparse
  Making Snakemake workflows into full-fledged command line tools since 1999.
  ☆51Updated 7 years ago
• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆84Updated 4 years ago
• mgymrek / pybamview
  Browser based application for viewing bam alignments
  ☆56Updated 8 years ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 4 years ago
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆22Updated 6 years ago
• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆49Updated 6 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• acg-team / tral
  Tandem Repeat Annotation Library
  ☆25Updated 2 years ago
• eturro / mmseq
  Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads
  ☆68Updated last year
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆42Updated 3 years ago
• Clinical-Genomics / chanjo
  Chanjo provides a better way to analyze coverage data in clinical sequencing.
  ☆51Updated 10 months ago
• fulcrumgenomics / fqtk
  Fast FASTQ sample demultiplexing in Rust.
  ☆66Updated last week
• nellore / intropolis
  Exon-exon splice junctions across SRA
  ☆42Updated 4 years ago
• refgenie / refgenie
  Reference genome resource manager
  ☆74Updated last year
• vpc-ccg / calib
  Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.
  ☆39Updated 2 years ago
• brentp / geneimpacts
  prioritize effects of variant annotations from VEP, SnpEff, et al.
  ☆34Updated 10 months ago
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 2 years ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆81Updated 9 months ago
• COMBINE-lab / wasabi
  Prepare Sailfish and Salmon output for downstream analysis
  ☆42Updated 6 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated last year
• harvardinformatics / NGmerge
  Merging paired-end reads and removing adapters
  ☆30Updated 5 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• vembrane / vembrane
  vembrane filters VCF records using python expressions
  ☆65Updated last month
• ewels / Labrador
  A web based tool to manage and automate the processing of publicly available datasets.
  ☆39Updated 4 years ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆98Updated last year
• brentp / rare-disease-wf
  (WIP) best-practices workflow for rare disease
  ☆62Updated last year
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆35Updated 8 years ago
• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆35Updated 3 months ago