Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
☆23Dec 12, 2018Updated 7 years ago
Alternatives and similar repositories for rtfbs_db
Users that are interested in rtfbs_db are comparing it to the libraries listed below
Sorting:
- Detecting Regulatory Elements using GRO-seq and PRO-seq☆40Apr 30, 2025Updated 10 months ago
- A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.☆34Aug 1, 2024Updated last year
- Bayesian Markov Model motif discovery - An expectation maximization algorithm for the de novo discovery of enriched motifs as modelled by…☆20Oct 5, 2017Updated 8 years ago
- PARE: a computational method to Predict Active Regulatory Elements☆11Aug 8, 2025Updated 7 months ago
- Color DNA/RNA bases in terminal output☆21Aug 29, 2017Updated 8 years ago
- 7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs☆13Oct 15, 2025Updated 5 months ago
- ChIP-seq peak calling with GC effects adjustment☆10Jul 5, 2018Updated 7 years ago
- Smooth quantile normalization (qsmooth) is a generalization of quantile normalization, which is an average of the two types of assumption …☆52Nov 5, 2022Updated 3 years ago
- ☆21Mar 20, 2017Updated 9 years ago
- NeuronMotif: deciphering cis-regulatory codes by layerwise demixing of deep neural networks☆15Jun 19, 2023Updated 2 years ago
- Decomposition-based peak identification, which find peaks across a large number of TSS (transcription starting site) profiles☆15Aug 3, 2017Updated 8 years ago
- Haystack: Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline☆46Jun 21, 2022Updated 3 years ago
- ☆14Aug 30, 2025Updated 6 months ago
- Single cell network synthesis toolkit☆23Feb 15, 2021Updated 5 years ago
- significance testing over interval overlaps☆30Jul 11, 2020Updated 5 years ago
- TFFM framework☆13Sep 22, 2025Updated 5 months ago
- Single-Cell ENhancer Target gene mapping using multimodal data with ATAC + RNA☆83Apr 21, 2025Updated 10 months ago
- Code for building and testing variant ranking strategies☆17Aug 22, 2025Updated 6 months ago
- The vignette provided has a basic sketch of the steps we interactively will go through to build a package with devtools, explains version…☆11Jul 29, 2020Updated 5 years ago
- This is the package of Yuanfang's winning algorithm in the ENCODE-DREAM in vivo Transcription Factor Binding Site Prediction Challenge☆20Jun 11, 2020Updated 5 years ago
- Perl scripts for working with the GFF format☆16Aug 24, 2011Updated 14 years ago
- JAMM Peak Finder for Sequencing Datasets☆30Mar 12, 2020Updated 6 years ago
- R interface to query UCSC bigWig files☆14Aug 23, 2020Updated 5 years ago
- Building Gene Sets and Mapping mFISH Data☆16Aug 20, 2025Updated 7 months ago
- Yet Another Motif Discovery Algorithm☆53Jan 10, 2019Updated 7 years ago
- R package for high-throughput DNA shape predictions and feature encoding☆20Jul 1, 2021Updated 4 years ago
- Library and command line scripts for fitting heteroskedastic linear mixed models to genetic data. Can be used to perform GWAS for genetic…☆19Sep 13, 2018Updated 7 years ago
- ☆47Feb 11, 2026Updated last month
- Analysis repository for "Droplet-based combinatorial indexing for massive scale single-cell epigenomics"☆11Sep 30, 2019Updated 6 years ago
- Links to data science, bioinformatics, statistics, and machine learning resources☆18Aug 20, 2020Updated 5 years ago
- A light-weight HTML lab notebook generator☆18Jun 16, 2023Updated 2 years ago
- Toolkit for QTL mapping and meta-analysis.☆17May 24, 2022Updated 3 years ago
- ☆33Sep 25, 2019Updated 6 years ago
- The R package for SVM with GPU architecture based on the GTSVM software☆32Aug 4, 2021Updated 4 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Apr 7, 2022Updated 3 years ago
- gfftools - Galaxy toolshed repository☆15Sep 13, 2017Updated 8 years ago
- Peax is a tool for interactive visual pattern search and exploration in epigenomic data based on unsupervised representation learning wit…☆69Dec 14, 2022Updated 3 years ago
- A Python API for managing genotype-phenotype map data☆12Aug 18, 2023Updated 2 years ago
- Preprocesses and Aligns Run-On Sequencing (PRO/GRO/ChRO-seq) data from Single-Read or Paired-End Illumina Sequencing☆30Dec 13, 2024Updated last year