Alternatives and similar repositories for sam2pairwise

Users that are interested in sam2pairwise are comparing it to the libraries listed below

• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆142Updated 3 months ago
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated 7 months ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆99Updated last year
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆77Updated 8 months ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• mritchielab / long_read_tools
  A catalogue of available long read sequencing data analysis tools
  ☆83Updated 2 months ago
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆86Updated 7 years ago
• Kingsford-Group / scallop
  Scallop is a reference-based transcriptome assembler for RNA-seq
  ☆91Updated 4 years ago
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆113Updated last year
• nanoporetech / pinfish
  Tools to annotate genomes using long read transcriptomics data
  ☆45Updated 5 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• Snakemake-Profiles / lsf
  Snakemake profile for running jobs on an LSF cluster
  ☆38Updated last year
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆108Updated last month
• harvardinformatics / NGmerge
  Merging paired-end reads and removing adapters
  ☆30Updated 5 years ago
• marcelm / dnaio
  Efficiently read and write sequencing data from Python
  ☆68Updated last month
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆120Updated 2 months ago
• smithlabcode / preseq
  Software for predicting library complexity and genome coverage in high-throughput sequencing.
  ☆89Updated last year
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆113Updated 2 months ago
• MultiQC / MegaQC
  Web application to collect and visualise data across multiple MultiQC runs.
  ☆95Updated 11 months ago
• nf-core / oncoanalyser
  A comprehensive cancer DNA/RNA analysis and reporting pipeline
  ☆97Updated this week
• bcgsc / biobloom
  Create Bloom filters for a given reference and then use it to categorize sequences
  ☆76Updated last year
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆151Updated last week
• parklab / bamsnap
  ☆123Updated 4 months ago
• LooseLab / bulkvis
  ☆49Updated last year
• louiejtaylor / grabseqs
  A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA
  ☆109Updated 3 months ago
• pwwang / vcfstats
  Powerful statistics for VCF files
  ☆72Updated 3 weeks ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆83Updated 3 years ago
• linsalrob / fastq-pair
  Match up paired end fastq files quickly and efficiently.
  ☆152Updated last year