SoupX
Data cleaner
A tool to quantify and remove cell-specific mRNA contamination from single-cell RNA-seq data.
R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
259 stars
6 watching
36 forks
Language: R
last commit: about 2 years ago
Linked from 1 awesome list
Related projects:
Repository | Description | Stars |
---|---|---|
reactorsh/ambrosia | A command-line tool for improving text datasets used in machine learning by removing duplicates and filtering out unwanted data | 114 |
edepasquale/doubletdecon | Deconvolutes single-cell RNA-seq data from potential doublets to remove contamination | 69 |
mohuangx/saver | Recover gene expression profiles from noisy single-cell RNA-seq data using regression and empirical Bayes methods. | 109 |
scverse/scvi-tools | Probabilistic analysis tools for single-cell omics data | 1,251 |
f34nk/tidy_ex | A C-based Elixir binding for a popular HTML cleaning tool. | 9 |
ropensci/coordinatecleaner | Automated tool to detect and flag spatial and temporal errors in biological data | 79 |
yoseflab/scone | Tools for quality control and normalization of single-cell RNA-seq data | 53 |
msamogh/nonechucks | Library that provides dynamic data cleaning and filtering capabilities for PyTorch datasets and samplers | 377 |
snakemake-workflows/single-cell-rna-seq | A workflow generator for single-cell RNA-seq data analysis | 97 |
robhabraken/shrink | Analyzes and cleans up media libraries in Sitecore databases to optimize storage usage. | 2 |
kharchenkolab/dropest | A software pipeline for analyzing single-cell RNA-seq data from droplet-based experiments | 88 |
patois/xray | Tool for filtering and highlighting decompiler output based on regular expressions | 125 |
dtm2451/dittoseq | A suite of functions for analyzing and visualizing RNA sequencing data | 190 |
kharchenkolab/numbat | Analyzes single-cell RNA-seq data to detect allele-specific copy number variations and infer lineage relationships in cancer cells | 166 |
rabadanlab/sctda | An object-oriented Python library for analyzing single-cell RNA-seq data using topological representations | 7 |