epigenetics
Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
Chromatin ACcessibility and Transcriptomics Unifying Software
Benchmarking computational methods for single-cell ATAC-seq and CUT&Tag
Python applications and libraries for working with PGS data and the PGS Catalog
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
Nextflow wrapper for the tobias analysis tool
A nextflow pipeline which integrates multiple omic data streams and performs coordinated analysis
Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed installation instructions and usage examples.
An introduction to various methods/approaches for the analysis of peaks generated from ChIP-seq / CUT&RUN / ATAC-seq
KILDA (KIv2 Length Determined from a kmer Analysis) provides an alignment-free estimation of the number of KIV2 (Kringle IV type 2) repeats from FASTQ files.
Use an ensemble of variant callers to call variants from ATAC-seq data
This API provides programmatic access to the AlphaGenome model developed by Google DeepMind.