liguowang / cpgtools
Python package to analyze DNA methylation data
☆41Updated 4 months ago
Alternatives and similar repositories for cpgtools:
Users that are interested in cpgtools are comparing it to the libraries listed below
- trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…☆86Updated 2 weeks ago
- OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data☆50Updated 3 weeks ago
- Snakemake-based workflow for detecting structural variants in genomic data☆80Updated last month
- Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)☆41Updated 10 months ago
- Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data☆65Updated 4 years ago
- Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer☆45Updated this week
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆43Updated 2 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 6 years ago
- optimization of ribosome P-site positioning in ribosome profiling data☆50Updated last month
- ☆38Updated 6 months ago
- Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data☆27Updated last year
- Quantification of transposable element expression using RNA-seq☆65Updated last year
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆49Updated 2 years ago
- Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools☆72Updated 3 years ago
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆35Updated 3 years ago
- Ultraperformant reimplementation of SICER☆56Updated 3 years ago
- Fork of the Polysolver project☆31Updated 5 years ago
- Gene Fusion Visualiser☆51Updated 2 years ago
- ☆55Updated 3 years ago
- nextNEOpi: a comprehensive pipeline for computational neoantigen prediction☆70Updated 3 months ago
- EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.☆57Updated 3 months ago
- Single cell Nanopore sequencing data for Genotype and Phenotype☆49Updated this week
- A python package and a set of shell commands to handle GTF files☆47Updated 9 months ago
- Motif Scan and Enrichment Analysis (MoSEA)☆16Updated 4 years ago
- CADD scripts release for offline scoring. For more information about CADD, please visit our website☆78Updated 3 months ago
- MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.☆56Updated last week
- Identify cell barcodes from single-cell genomics sequencing experiments☆43Updated 3 years ago
- IDR☆31Updated 2 years ago
- Python package to annotate and visualize gene fusions.☆61Updated 6 months ago
- Notes on ChIP-seq and other-seq-related tools☆25Updated 2 months ago