transcription-factor-binding topic
ChIP-seq-analysis
ChIP-seq analysis notes from Ming Tang
tf-bind-transformer
A repository with exploration into using transformers to predict DNA ↔ transcription factor binding
rtfbs_db
Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
haystack_bio
Haystack: Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline
DNABERT_2
[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome
maxATAC
Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks
pyjaspar
pyJASPAR: A Pythonic interface to JASPAR transcription factor motifs