spundhir / PARE
PARE: a computational method to Predict Active Regulatory Elements
☆10Updated 5 years ago
Alternatives and similar repositories for PARE:
Users that are interested in PARE are comparing it to the libraries listed below
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- Chromatin segmentation in R☆19Updated 7 years ago
- Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.☆22Updated 6 years ago
- A toolkit for working with ATAC-seq data.☆24Updated 8 months ago
- A tool for Read Multi-Mapper Resolution☆23Updated 8 years ago
- Tutorials covering various topics in genomic data analysis.☆16Updated 6 years ago
- GTEx analysis scripts☆20Updated 7 years ago
- Enriched Domain Detector for ChIP-seq data☆16Updated 2 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 2 years ago
- Run Picard on BAM files and collate 90 metrics into one file.☆39Updated 7 years ago
- R package for reading in & working with NucleoATAC outputs☆26Updated 6 years ago
- Modeling and correcting fragment sequence bias for RNA-seq☆24Updated 8 months ago
- A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.☆28Updated 7 months ago
- Allele-Specific Expression by Single-Cell RNA Sequencing☆28Updated 4 years ago
- Differential ATAC-seq toolkit☆27Updated last year
- A small R package to make sequencing read coverage plots in R.☆37Updated 2 years ago
- Identify cell barcodes from single-cell genomics sequencing experiments☆41Updated 3 years ago
- Genomic Association Tester☆30Updated last year
- A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.☆26Updated 8 years ago
- chia pet analysis software☆25Updated 6 years ago
- ☆15Updated last year
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 8 years ago
- Q ChIP-seq peak caller☆18Updated 7 months ago
- R package for Methylation-based Inference of Regulatory Activity☆11Updated 4 years ago
- fast webservices based query tool for large sets of genomic features☆25Updated 2 years ago
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 7 years ago
- A/B compartments for 12 cancer types estimated from TCGA methylation data☆18Updated 8 years ago
- ☆9Updated 8 years ago
- Code for differential splicing comparison paper (Soneson, Matthes, et al.)☆20Updated 8 years ago
- ChromDiff program as described in Yen and Kellis, Nature Communications 2015.☆13Updated 8 years ago