Ecosyste.ms: Repos

An open API service providing repository metadata for many open source software ecosystems.

GitHub topics: cram

Repositories

samtools/htslib

C library for high-throughput sequencing data formats

Language: C - Size: 12.4 MB - Last synced: 1 day ago - Pushed: 2 days ago - Stars: 775 - Forks: 446

prysk/prysk Fork of aiiie/cram

Functional tests for command line applications

Language: Python - Size: 2.03 MB - Last synced: 3 days ago - Pushed: 4 days ago - Stars: 21 - Forks: 8

samtools/htsjdk

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

Language: Java - Size: 109 MB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 272 - Forks: 244

Griffan/VerifyBamID

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

Language: mupad - Size: 69.2 MB - Last synced: 5 days ago - Pushed: 5 days ago - Stars: 87 - Forks: 15

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: Nextflow - Size: 5.62 MB - Last synced: 5 days ago - Pushed: 5 days ago - Stars: 5 - Forks: 3

nf-cmgg/germline

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

Language: Nextflow - Size: 8.53 MB - Last synced: 12 days ago - Pushed: 12 days ago - Stars: 4 - Forks: 1

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: C - Size: 966 MB - Last synced: 3 days ago - Pushed: 20 days ago - Stars: 149 - Forks: 10

ag-sc/CRAM-Generation-LLM

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

Language: Python - Size: 19.5 MB - Last synced: 20 days ago - Pushed: 20 days ago - Stars: 1 - Forks: 0

gregzanch/cram

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

Language: TypeScript - Size: 118 MB - Last synced: 14 days ago - Pushed: about 1 year ago - Stars: 36 - Forks: 4

biosails/pheniqs

Fast and accurate sequence demultiplexing

Language: C++ - Size: 72.2 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 23 - Forks: 4

sbslee/fuc

Frequently used commands in bioinformatics

Language: Python - Size: 1.17 MB - Last synced: 9 days ago - Pushed: 8 months ago - Stars: 44 - Forks: 5

brentp/bedder-rs

an API for intersections of genomic data

Language: Rust - Size: 174 KB - Last synced: 10 days ago - Pushed: 10 months ago - Stars: 4 - Forks: 0

ncherric/Iliad

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

Language: Python - Size: 54.7 MB - Last synced: 4 months ago - Pushed: 5 months ago - Stars: 23 - Forks: 2

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: Python - Size: 15.1 MB - Last synced: 24 days ago - Pushed: 24 days ago - Stars: 0 - Forks: 0

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: Python - Size: 239 KB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0