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Sequence Analysis Python Packages

Python packages with the GitHub topic sequence-analysis. Sorted by relevance, with stars and monthly downloads.
biotite-dev
biotite

A comprehensive library for computational molecular biology

4.6M 950 135
althonos
pyhmmer

Cython bindings and Python interface to HMMER3.

2.7M 163 17
Liang-Team
sequenzo

A fast, scalable, and intuitive Python package in sequence analysis.

11K 34 10
abimael10
anomaly-grid-py

Deviation detection using variable-order Markov-chains in finite alphabet sequences

10K 1 0
TimoLassmann
kalign-python

A fast multiple sequence alignment program.

8K 155 34
moshi4
pymsaviz

MSA(Multiple Sequence Alignment) visualization python package for sequence analysis

8K 192 23
althonos
peptides

Physicochemical properties, indices and descriptors for amino-acid sequences.

6K 118 19
althonos
lightmotif

A lightweight platform-accelerated library for biological motif scanning using position weight matrices.

5K 62 2
althonos
pymemesuite

Cython bindings and Python interface to the MEME suite.

2K 17 0
akikuno
midsv

Python module to convert SAM to MIDSV format.

2K 2 0
ylab-hi
pxblat

PxBLAT: An Efficient and Ergonomic Python Binding Library for BLAT

902 18 0
ggonnella
gfapy

Gfapy: a flexible and extensible software library for handling sequence graphs in Python

747 71 8
meyer-lab-cshl
codepub

CodePUB

681 0 0
nmdp-bioinformatics
seqann

Sequence Annotation

651 5 8
Edinburgh-Genome-Foundry
geneblocks

:diamond_shape_with_a_dot_inside: Find common blocks and differences between DNA sequences

617 44 3
incertae-sedis
smof

Explore and analyze biological sequence data

545 17 3
yuanx749
py-cdhit

A Python interface for CD-HIT package.

486 116 0
althonos
pyncbitk

Cython bindings and Python interface to the NCBI C++ ToolKit (including BLAST+).

466 11 0
omatheuspimenta
gramep

GRAMEP - Genome vaRiation Analysis from the Maximum Entropy Principle

457 7 2
nsbuitrago
vfind

Simple variant finding from NGS data

374 2 2
xapple
seqsearch

Sequence similarity searches (e.g. BLAST) made easy

318 3 1
althonos
pyncbitk-runtime

Cython bindings and Python interface to the NCBI C++ ToolKit (including BLAST+).

265 11 0
weekend37
string-kernels

Implementation of the Polynomial String Kernel and linear time String Kernel implementation. Compatible and ready for easy plug-in to Scikit-Learn's Support Vector Machines and supports multithreading.

264 5 1
Superzchen
ilearnplus

iLearnPlus is the first machine-learning platform with both graphical- and web-based user interface that enables the construction of automated machine-learning pipelines for computational analysis and predictions using nucleic acid and protein sequences.

232 125 36
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