brentp / pyfasta
fast, memory-efficient, pythonic (and command-line) access to fasta sequence files
☆87Updated 7 years ago
Alternatives and similar repositories for pyfasta:
Users that are interested in pyfasta are comparing it to the libraries listed below
- Efficient handling of FASTQ files from Python☆51Updated 7 months ago
- Library for manipulating genomic variants and predicting their effects☆84Updated 9 months ago
- Scripts, utilities and programs for genomic bioinformatics.☆82Updated last week
- Very simple, pure python, BAM file reader☆79Updated 6 years ago
- Simple FASTQ quality assessment using Python☆108Updated 3 years ago
- Sequana: a set of Snakemake NGS pipelines☆146Updated last month
- A fast Python library for VCF files leveraging Cython for speed.☆52Updated 7 years ago
- Browser based application for viewing bam alignments☆56Updated 8 years ago
- Extension for Jupyter which integrates igv.js☆154Updated 2 years ago
- High-performance error correction for Illumina resequencing data☆70Updated 8 years ago
- Tandem Repeat Annotation Library☆25Updated 2 years ago
- Simple pure Python SAM parser and objects for working with SAM records☆64Updated 2 years ago
- De novo transcriptome assembler for short reads☆62Updated 7 years ago
- python access to UCSC genomes database☆135Updated 4 years ago
- Parse Illumina sample sheets with Python☆50Updated last year
- Standalone C library for assembling Illumina short reads in small regions☆72Updated 2 years ago
- Python bindings to bwa mem☆32Updated 5 years ago
- Automatically exported from code.google.com/p/ea-utils☆96Updated last year
- A 3'-end adapter contaminant trimmer☆94Updated 7 years ago
- Retrieve data in genomic intervals with a Python interface for tabix.☆82Updated 7 years ago
- Fishers Exact Test for Python (Cython)☆65Updated 3 weeks ago
- Simple vcf parser, based on PyVCF☆46Updated 6 years ago
- Position-wise analysis of sequencing and genomics data☆39Updated last year
- UCSC Nanopore group's software pipeline for reference-based sequence analysis☆54Updated 9 years ago
- Tools for next-generation sequencing analysis☆88Updated 5 years ago
- A C++ header-only library for reading Oxford Nanopore Fast5 files☆53Updated 2 years ago
- De novo genome assembly and multisample variant calling☆112Updated 6 years ago
- An NGS read trimming tool that is specific, sensitive, and speedy. (production)☆121Updated last year
- De novo assembly based variant calling pipeline for Illumina short reads☆108Updated 4 years ago
- Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files☆107Updated last month