Genome Python Packages

pyliftover

Pure-python implementation of UCSC liftOver genome coordinate conversion

68K 103 15

pyfastx

a python package for fast random access to sequences from plain and gzipped FASTA/Q files

58K 296 25

genomepy

genes and genomes at your fingertips

44K 412 41

pyrodigal

Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!

41K 189 11

magenpy

Modeling and Analysis of (Statistical) Genetics data in python

3K 19 6

pyaragorn

Cython bindings and Python interface to ARAGORN, a (t|mt|tm)RNA gene finder.

2K 10 1

intronic

Retrieve annotated intron sequences from an annotated genome and classify them as minor (U12-type) or major (U2-type) using a support vector machine model.

2K 9 1

edge-genome

Genome Engineering Tool

2K 38 4

genet

Python library for genome editing, CRISPR gRNA design and prediction

1K 21 6

wormneuroatlas

Neural signal propagation atlas (Randi et al.), genome (WormBase), single-cell transcriptome (Taylor et al.), neuropeptide/GPCR deorphanization (Beets et al.), monoaminergic connectome (Bentley et al.), and chemical-synapse sign predictions (Fenyves et al.) all in one place. Read the docs: https://francescorandi.github.io/wormneuroatlas/

1K 9 8