BWK awk modified for biological data
☆640Aug 11, 2022Updated 3 years ago
Alternatives and similar repositories for bioawk
Users that are interested in bioawk are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Toolkit for processing sequences in FASTA/Q formats☆1,547Jun 1, 2025Updated last year
- bedtools - the swiss army knife for genome arithmetic☆1,041Jun 10, 2026Updated last month
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,758Jun 20, 2026Updated last month
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,219May 19, 2026Updated 2 months ago
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,479Jun 29, 2026Updated 3 weeks ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,581Jul 8, 2026Updated last week
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆144Aug 24, 2025Updated 10 months ago
- Tools to process and analyze deep sequencing data.☆762Updated this week
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,400Jul 10, 2026Updated last week
- Tools for working with SAM/BAM data☆613Dec 22, 2024Updated last year
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,068Jun 13, 2026Updated last month
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆865May 2, 2026Updated 2 months ago
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,929Jul 10, 2026Updated last week
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more☆490Jul 7, 2026Updated last week
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆876Apr 20, 2026Updated 3 months ago
- python module to plot beautiful and highly customizable genome browser tracks☆895Jul 10, 2024Updated 2 years ago
- Cutadapt removes adapter sequences from sequencing reads☆586Jun 26, 2026Updated 3 weeks ago
- Useful bash one-liners for bioinformatics.☆2,023Sep 9, 2023Updated 2 years ago
- Graph-based alignment (Hierarchical Graph FM index)☆540Jan 27, 2026Updated 5 months ago
- C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings☆682Mar 20, 2026Updated 4 months ago
- Java utilities for Bioinformatics☆525Updated this week
- A fast multi-threaded k-mer counter☆547Mar 20, 2024Updated 2 years ago
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆918Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A grammar of graphics for comparative genomics☆774Jul 3, 2026Updated 2 weeks ago
- Reads simulator☆285Sep 3, 2021Updated 4 years ago
- The next version of bwa-mem☆851Oct 15, 2025Updated 9 months ago
- Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations☆755Jul 4, 2026Updated 2 weeks ago
- Fast genome analysis from unassembled short reads☆323Apr 8, 2024Updated 2 years ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆406Jun 16, 2026Updated last month
- C++ API & command-line toolkit for working with BAM data☆431May 18, 2025Updated last year
- Sequence-to-graph mapper and graph generator☆483Aug 11, 2025Updated 11 months ago
- De novo assembler for single molecule sequencing reads using repeat graphs☆944Apr 3, 2026Updated 3 months ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- BEDOPS: high-performance genomic feature operations☆373Apr 29, 2025Updated last year
- Python library to facilitate genome assembly, annotation, and comparative genomics☆924Updated this week
- An efficient FASTQ manipulation suite☆139Jan 27, 2020Updated 6 years ago
- Mummer alignment tool☆564Feb 4, 2025Updated last year
- A flexible framework for rapid genome analysis and interpretation☆320Oct 18, 2022Updated 3 years ago
- An accurate GFF3/GTF lift over pipeline☆547Aug 1, 2023Updated 2 years ago
- lumpy: a general probabilistic framework for structural variant discovery☆344Feb 22, 2026Updated 4 months ago