biopython by biopython

Official git repository for Biopython (originally converted from CVS)

updated at May 25, 2024, 8:29 p.m.

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csvkit by wireservice

A suite of utilities for converting to and working with CSV, the king of tabular file formats.

updated at May 25, 2024, 6:37 p.m.

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hail by hail-is

Cloud-native genomic dataframes and batch computing

updated at May 24, 2024, 7:38 p.m.

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ChIP-seq-analysis by crazyhottommy

ChIP-seq analysis notes from Ming Tang

updated at May 24, 2024, 3:32 p.m.

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AfterQC by OpenGene

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

updated at May 24, 2024, 7:31 a.m.

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deepvariant by google

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

updated at May 23, 2024, 1:24 p.m.

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gffutils by daler

GFF and GTF file manipulation and interconversion

updated at May 23, 2024, 8:02 a.m.

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RNA-seq-analysis by crazyhottommy

RNAseq analysis notes from Ming Tang

updated at May 23, 2024, 7:48 a.m.

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bamsurgeon by adamewing

tools for adding mutations to existing .bam files, used for testing mutation callers

updated at May 22, 2024, 10:59 p.m.

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bakta by oschwengers

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

updated at May 22, 2024, 4:17 p.m.

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pyensembl by openvax

Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl

updated at May 22, 2024, 12:31 p.m.

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bcbio-nextgen by bcbio

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

updated at May 21, 2024, 1:58 p.m.

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bioservices by cokelaer

Access to Biological Web Services from Python.

updated at May 17, 2024, 9:55 p.m.

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redun by insitro

Yet another redundant workflow engine

updated at May 17, 2024, 3:09 a.m.

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pyfaidx by mdshw5

Efficient pythonic random access to fasta subsequences

updated at May 13, 2024, 2:09 p.m.

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PyVCF by jamescasbon

A Variant Call Format reader for Python.

updated at May 9, 2024, 10:25 a.m.

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wormtable by wormtable

Write-once-read-many table for large datasets.

updated at May 1, 2024, 10:03 p.m.

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poapy by ljdursi

A simple Partial Order Aligner based on Lee, Grasso and Sharlow (2002), for education/demonstration purposes

updated at April 29, 2024, 5:18 p.m.

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cruzdb by brentp

python access to UCSC genomes database

updated at April 23, 2024, 8:01 p.m.

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ggd-cli by gogetdata

The command-line interface to GGD

updated at April 17, 2024, 12:59 p.m.

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