jpiper / pyDNase
Python module for the easy handling and analysis of DNase-seq data
☆37Updated 5 years ago
Alternatives and similar repositories for pyDNase:
Users that are interested in pyDNase are comparing it to the libraries listed below
- ChIP-seq DC and QC Pipeline☆34Updated 4 years ago
- A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.☆26Updated 8 years ago
- 3D hotspot mutation proximity analysis tool☆46Updated last year
- ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.☆28Updated 5 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- A portable, flexible, parallelized tool for complete processing of massively parallel reporter assay data☆32Updated 2 months ago
- Exon-exon splice junctions across SRA☆40Updated 3 years ago
- Identify cell barcodes from single-cell genomics sequencing experiments☆43Updated 3 years ago
- A Feature Density Estimator for High-Throughput Sequence Tags☆23Updated 3 years ago
- A toolkit for working with ATAC-seq data.☆24Updated 9 months ago
- Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data☆33Updated 7 years ago
- Data analysis scripts for Rendeiro et. al, 2016 (doi:10.1038/ncomms11938)☆9Updated 7 years ago
- MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.☆49Updated 5 years ago
- Software for comparing contact maps from HiC, CaptureC and other 3D genome data.☆26Updated 6 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- Deep Feature Interaction Maps (DFIM)☆53Updated 5 years ago
- Signed LD profile regression code☆17Updated 3 weeks ago
- Code for the paper "A comprehensive examination of Nanopore native RNA sequencing for characterization of complex transcriptomes"☆19Updated 5 years ago
- predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data☆26Updated last year
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 7 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 2 years ago
- Published methods☆15Updated 8 years ago
- ☆14Updated 4 years ago
- Annotation of genomic regions using transcription factor binding sites and epigenetic data☆40Updated 2 years ago
- Tutorials covering various topics in genomic data analysis.☆16Updated 6 years ago
- ☆19Updated 7 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆42Updated 3 years ago
- Preprocessing of single-cell RNA-Seq (deprecated)☆62Updated 5 years ago
- Gene Fusion Visualiser☆51Updated 2 years ago
- How to use CENTIPEDE to determine if a transcription factor is bound.☆26Updated 7 years ago