cram

There are 23 repositories under cram topic.

  • samtools/htslib

    C library for high-throughput sequencing data formats

    Language:C78163696448

  • samtools/htsjdk

    A Java API for high-throughput sequencing data (HTS) formats.

    Language:Java27449591244

  • divonlan/genozip

    A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too

    Language:C15012311

  • chrovis/cljam

    A DNA Sequence Alignment/Map (SAM) library for Clojure

    Language:Clojure90112912

  • Griffan/VerifyBamID

    VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.

    Language:mupad9085515

  • sbslee/fuc

    Frequently used commands in bioinformatics

    Language:Python451345
  • cram

    gregzanch/cram

    cram is a computational room acoustics module to simulate and explore various acoustic properties of a modeled space

    Language:TypeScript403194

  • ncherric/Iliad

    ILIAD: A suite of automated Snakemake workflows for processing genomic data for downstream applications

    Language:Python28112

  • prysk/prysk

    Functional tests for command line applications

    Language:Python245599

  • biosails/pheniqs

    Fast and accurate sequence demultiplexing

    Language:C++233274

  • brentp/bpbio

    basepair bio: a single binary with many useful genomics subtools.

    Language:Nim6352

  • nf-cmgg/structural

    A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region expansions (RREs) from short DNA reads

    Language:Nextflow65483

  • brentp/bedder-rs

    an API for intersections of genomic data

    Language:Rust4410

  • nf-cmgg/germline

    A nextflow pipeline for calling and annotating small germline variants from short DNA reads for WES and WGS data

    Language:Nextflow43741

  • ag-sc/CRAM-Generation-LLM

    Using ChatGPT & GPT-4 to generate CRAM & PyCRAM designators in a one-shot fashion

    Language:Python210

  • beling/impartial-games

    Rust software for solving impartial games.

    Language:Rust1100

  • machinekoder/Fabrikator-Mini-CRAMPS

    Machinekit configuration for the Fabrikator Mini + CRAMPS board

    Language:Python1201

  • REGOVAR/Pirus

    a REST service to launch pipeline

    Language:Python15108

  • Computational-Genomics-BSC/GenomeMosaicMaker

    Tool for copying read-alignments regions centered around variants (in VCF/VCF.GZ/BCF format) from existing genomes (in SAM/BAM/CRAM format) to insert them into canvas genomes (in SAM/BAM/CRAM format).

    Language:Python0100

  • Computational-Genomics-BSC/GenomeVariator

    Tool for adding genomic variants to an existing genome (in SAM/BAM/CRAM format). Currently supported variants are SNVs, indels and SVs (insertions, deletions, translocations, inversions and duplications). It generates realistic genomes as almost always less than 99% of the original real genome is modified.

    Language:Python0100

  • maurya-anand/getBamDepth

    A script to report depth of coverage from BAM/SAM/CRAM file or parse the output generated from "samtools depth"

    Language:Perl10

  • mtso/cram

    Line cramming/un-cramming utility

    Language:Go20

  • nikolausschueler/tapconverters

    Convert output from Cram (and some other tools) to TAP (Test Anything Protocol)

    Language:Python12