ahoarfrost / fastBio
Deep learning library for biological sequences. Extension of Fastai and Pytorch.
☆40Updated 3 months ago
Related projects ⓘ
Alternatives and complementary repositories for fastBio
- Proteins as words, genomes as documents.☆20Updated 4 years ago
- Tokenizers and Machine Learning Models for biological sequence data☆24Updated last month
- Simple and efficient access to genomic data for deep learning models.☆43Updated 4 years ago
- This repository contains all the source files required to run DeLUCS, a deep learning clustering algorithm for DNA sequences.☆24Updated 2 years ago
- Align sequences and then parse features.☆17Updated 2 months ago
- Make machine learning simpler with Galaxy☆11Updated 4 months ago
- Universal RObust Peak Annotator☆15Updated 11 months ago
- Machine learning workflows for analyzing high-throughput protein data☆24Updated 7 years ago
- Methods for mapping genomic data onto 3D protein structure.☆28Updated 2 years ago
- ☆23Updated 2 months ago
- Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!☆20Updated 2 months ago
- MerCat: python code for versatile k-mer counting and diversity estimation for database independent property analysis for meta -ome data☆18Updated last year
- Detecting Sequence Signals in Targeting Peptides Using Deep Learning☆12Updated 5 years ago
- ☆9Updated 5 months ago
- A tool for computing the coding potential of RNA transcript sequences using deep learning classification model☆52Updated 2 years ago
- A repository for the GenGraph toolkit for the creation and manipulation of graph genomes☆51Updated 3 years ago
- CNN based classifier for detecting viral sequences among metagenomic contigs☆32Updated 4 years ago
- ☆24Updated 3 years ago
- A Python interface to the Ensembl REST APIs, biological data at your fingertips.☆11Updated 7 months ago
- A Python3 script for removal of outlier sequences from a multiple sequence alignment (FASTA format).☆9Updated 3 years ago
- Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"☆43Updated last year
- Prediction of protein substitution impact using a directional substitution matrix and homolog alignments☆12Updated 3 years ago
- programs and scripts, mainly python, for analyses related to nucleic or protein sequences☆24Updated 2 months ago
- DeepMetabolism is a deep learning algorithm to predict phenotype from genome sequencing☆31Updated 7 years ago
- Parsing MHC nomenclature in the wild☆16Updated last month
- A Generative Pre-Trained Transformer Package for Pangenomes☆47Updated 6 months ago
- Visualize global properties of large RNAs using GraphViz force-directed layout.☆20Updated last year
- 🧬 MSABrowser: dynamic and fast visualization of sequence alignments, variations, and annotations☆31Updated 6 months ago
- A python library for creating simulated regulatory DNA sequences☆38Updated last year