caleblareau / maegatk
Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
☆19Updated last year
Alternatives and similar repositories for maegatk:
Users that are interested in maegatk are comparing it to the libraries listed below
- This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…☆25Updated 6 months ago
- ☆33Updated last year
- ☆30Updated 3 months ago
- ☆49Updated 9 months ago
- An R implementation of the Gene Frequency - Inverse Cell Frequency method for single cell data normalization☆18Updated last year
- Analyzing chromatin accessibility data in R☆18Updated last year
- Snakemake pipeline for plate scATAC-seq processing☆26Updated last year
- Bioinformatics pipeline for single-cell 3' UTR isoform quantification☆22Updated 5 months ago
- Information-based dimensionality reduction☆29Updated 4 months ago
- cell type deconvolution for multi-condition bulk RNA-seq data☆25Updated 3 years ago
- ☆16Updated last year
- Analysis of imbalanced data and its impacts in a scRNA-seq integration setting☆30Updated last month
- cell type specific, trait-associated gene regulation☆24Updated last month
- SClineager: a Bayesian hierarchical model that performs lineage tracing of single cells based on genetic markers☆10Updated last year
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆28Updated 5 months ago
- Paired Insertion Counting for snATAC-seq data☆17Updated 8 months ago
- TF analysis from epigenetic and Hi-C data☆17Updated last month
- Scripts to reproduce the analysis of the MAESTER paper (https://www.nature.com/articles/s41587-022-01210-8).☆12Updated 11 months ago
- Ordering gene-expression and functional events in single-cell experiments☆22Updated last year
- Cell type specific enrichments using finemapped variants and quantitative epigenetic data☆45Updated last year
- Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq☆17Updated last month
- SCRIP(Single Cell Regulatory network Inference using ChIP-seq) is a tool for evaluating the binding enrichment of specific TR at single-c…☆19Updated 10 months ago
- scWGCNA☆59Updated 2 years ago
- Code & utilities for the manuscript "Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution"☆12Updated last year
- ☆29Updated 2 years ago
- ☆30Updated 2 years ago
- ☆32Updated 5 years ago
- Code and data from Koche et al. Extrachromosomal circular DNA drives oncogenic genome remodeling in neuroblastoma (2020)☆15Updated 4 years ago
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆33Updated 3 years ago
- R package for ReDeeM: single-cell Regulatory multi-omics with Deep Mitochondrial mutation profiling.☆13Updated this week