dib-lab / screed
a simple read-only sequence database, designed for short reads
☆64Updated 11 months ago
Alternatives and similar repositories for screed:
Users that are interested in screed are comparing it to the libraries listed below
- A fast Python library for VCF files leveraging Cython for speed.☆52Updated 6 years ago
- Snakemake library for bioinformatics programs, with a focus on next-generation sequencing☆22Updated 8 years ago
- Request for comments on interchangeable bioinformatics containers☆40Updated 5 years ago
- Curated collection of open-source bioinformatics tools☆28Updated 5 years ago
- reference free variant assembly☆32Updated last year
- Tandem Repeat Annotation Library☆24Updated last year
- Small general purpose library for C and Python with focus on bioinformatics.☆29Updated 2 years ago
- Manuscript describing ChronQC is now available online in Bioinformatics☆17Updated 5 years ago
- Retrieve data in genomic intervals with a Python interface for tabix.☆83Updated 7 years ago
- A lightweight Python graphing API for genomic features☆15Updated 2 years ago
- conda recipes for genomic data☆85Updated 3 years ago
- Miscellaneous Bioinformatics scripts etc mostly in Python☆45Updated last week
- ☆35Updated last year
- Docker images of bioinformatics software☆21Updated 7 years ago
- A Python library for reading and writing PacBio® data files☆40Updated this week
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- Basic, no assumptions, multi-pileup☆24Updated 10 years ago
- Toil workflows for common genomic pipelines☆33Updated 5 years ago
- This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion☆21Updated 3 years ago
- Efficient handling of FASTQ files from Python☆50Updated 4 months ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated 10 months ago
- Viral quasispecies assembly via maximal clique finding. A method to reconstruct viral haplotypes and detect large insertions and deletion…☆25Updated 6 years ago
- An approximate sequence pattern matcher for FASTQ/FASTA files.☆30Updated 8 years ago
- Metagenomic profiling and phylogenetic distances via common kmers☆42Updated 3 years ago
- a wee tool for random access into BGZF files.☆84Updated 6 years ago
- Classify sequencing reads using MinHash.☆48Updated 4 years ago
- Graph based multi genome aligner☆46Updated 3 years ago
- Pathoscope: Species identification and strain attribution with unassembled sequencing data☆54Updated 5 years ago
- De novo transcriptome assembler for short reads☆62Updated 6 years ago
- Tools for next-generation sequencing analysis☆88Updated 5 years ago