Search Packages

ga4gh

A reference implementation of the GA4GH API

helical

A framework for state-of-the-art pre-trained bio foundation models on genomics and transcriptomics modalities.

seqfold

nucleic acid folding

graphein

Protein Graph Library

metagene

Metagene Profiling Analysis and Visualization

rnaglib

Toolkit for structure-based deep learning on RNA.

pyaragorn

Cython bindings and Python interface to ARAGORN, a tRNA and mtRNA detection software.

rna-tools

🔧rna-tools: a toolbox to analyze sequences, structures and simulations of RNA (and more) used by RNA CASP, RNA PUZZLES, and me ;-) docs @ http://rna-tools.rtfd.io web @ http://rna-tools.online

eltetrado

A Python application to find and classify tetrads and quadruplexes in DNA/RNA 3D structures

deeprm

Deep learning for RNA Modification

chilife

Python package for site-directed spin labeling of proteins

pipeclip

Optimized version of PIPE-CLIP tool (bug fixed)

rnpfind

Bioinformatics tool for exploring RNA-Protein interactions

squarna

RNA secondary structure prediction tool

seqme

Metrics for evaluating biological sequence design

unitvelo

Temporally unified RNA velocity inference

pytximport

Feature-rich Python implementation of the tximport package for gene count estimation.

streq

🧬 Python utilities for working with nucleotide sequence strings.

hunana

A command-line tool that analyses the diversity and motifs of protein/nucleotide sequences.

bpforms

Toolkit for concretely describing non-canonical DNA, RNA, and proteins

starseqr

RNA Fusion Detection and Quantification

ncrnabert

ncRNABert: Deciphering the landscape of non-coding RNA using language model

dashingturtle

An application for building structural landscapes of RNA sequence modifications with Nanopore data. 📘 Documentation: https://dashing-turtle.readthedocs.io/

xpore

Identification of differential RNA modifications from nanopore direct RNA sequencing