kharchenkolab / hahmmrLinks
Haplotype-aware Hidden Markov Models for detecting CNVs from bulk RNA-seq
☆13Updated last year
Alternatives and similar repositories for hahmmr
Users that are interested in hahmmr are comparing it to the libraries listed below
Sorting:
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆43Updated 4 years ago
- binned motif enrichment analysis and visualisation☆41Updated this week
- Snakemake pipeline for benchmarking cell-type deconvolution methods and deconvolving real bulk RNA-seq data with the use of scRNA-seq dat…☆15Updated 4 months ago
- Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separ…☆30Updated 2 years ago
- Bead-based single-cell atac processing☆33Updated 3 years ago
- Scripts needed to generate the figures for the Monocle 2 paper (Qiu et al, 2017)☆29Updated 5 years ago
- Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles☆33Updated 5 months ago
- Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.☆37Updated last month
- Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)☆17Updated 5 years ago
- Cell type specific enrichments using finemapped variants and quantitative epigenetic data☆45Updated 2 years ago
- Discover differential transcript usage from polyA-captured single cell RNA-seq data☆51Updated 2 years ago
- ReMapEnrich is a R-software package to identify significantly enriched regions from ReMap catalogues or user defined catalogues. ReMapEnr…☆15Updated 3 years ago
- scover☆23Updated last year
- Comprehensive pipeline for donor demultiplexing in single cell☆24Updated 2 weeks ago
- ☆12Updated 6 years ago
- Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis☆34Updated 3 years ago
- Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018☆22Updated 6 years ago
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation☆21Updated last year
- Analysis code for "Perturbation-response genes reveal signaling footprints in cancer gene expression"☆20Updated 7 years ago
- ☆25Updated 3 years ago
- Allele-Specific Expression by Single-Cell RNA Sequencing☆29Updated 4 years ago
- <<------ Use SnapATAC!!☆25Updated 6 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆29Updated 5 months ago
- Bioinformatics pipeline for single-cell 3' UTR isoform quantification☆25Updated 9 months ago
- Pairwise Hierarchical Model☆19Updated 3 years ago
- A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…☆57Updated 4 years ago
- Single-cell Case Control Analysis☆52Updated 2 weeks ago
- ☆37Updated last year
- ☆23Updated last year
- Code accompanying The Evolutionary history of 2,658 cancers☆46Updated 4 years ago