Jome0169

John Pablo Mendieta 's starred repositories

Terminators-Plant-STARR-seq

Code and data for Plant Terminators STARR-seq

Language:Jupyter Notebook100

basenji

Sequential regulatory activity predictions with deep convolutional neural networks.

Language:PythonApache-2.039000

courses

This repository is a curated collection of links to various courses and resources about Artificial Intelligence (AI)

Language:Python526700

deeplift

Public facing deeplift repo

Language:PythonMIT80900

tfmodisco-lite

A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.

Language:PythonMIT5100

chrombpnet

Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)

Language:Jupyter NotebookMIT10800

dragonnfruit

A method for analyzing scATAC-seq experiments.

Language:PythonMIT2200

neural_motif_discovery

Framework for interrogating transcription-factor motifs and their syntax/grammars from neural-network interpretations

Language:Jupyter Notebook300

tfmodisco

TF MOtif Discovery from Importance SCOres

Language:Jupyter NotebookMIT12000

pgv

A web-based, interactive pangenome visualization tool

Language:TypeScriptMIT1900

tangermeme

Biological sequence analysis for the modern age.

Language:PythonMIT16300

gReLU

gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.

Language:PythonMIT16700

bx-python

Tools for manipulating biological data, particularly multiple sequence alignments

Language:PythonMIT14300

wgatools

Whole Genome Alignment Tools

Language:RustMIT9500

PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) explore all possible amino acid substitutions and their variant effects for a reference genome, and (2) view the natural variation and their effects across a pangenome.

Language:JavaScriptMIT700