scarfToolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.
Stars: ✭ 54 (-60.58%)
Mutual labels: differential-expression, single-cell-rna-seq
alevin-fry🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.
Stars: ✭ 78 (-43.07%)
Mutual labels: transcriptomics, single-cell-rna-seq
EWCEExpression Weighted Celltype Enrichment. See the package website for up-to-date instructions on usage.
Stars: ✭ 30 (-78.1%)
Mutual labels: transcriptomics, single-cell-rna-seq
D3EDiscrete Distributional Differential Expression
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Mutual labels: differential-expression, single-cell-rna-seq
bioc 2020 tidytranscriptomicsWorkshop on tidytranscriptomics: Performing tidy transcriptomics analyses with tidybulk, tidyverse and tidyheatmap
Stars: ✭ 25 (-81.75%)
Mutual labels: transcriptomics, differential-expression
biomisc Rcommand line bioinformatic scripts written in R
Stars: ✭ 20 (-85.4%)
Mutual labels: differential-expression
DEGreportCreate a cromphensive report of DEG list coming from any analysis of RNAseq data
Stars: ✭ 18 (-86.86%)
Mutual labels: differential-expression
cellrankCellRank for directed single-cell fate mapping
Stars: ✭ 222 (+62.04%)
Mutual labels: single-cell-rna-seq
rna-seq-kallisto-sleuthA Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
Stars: ✭ 56 (-59.12%)
Mutual labels: differential-expression
scCODAA Bayesian model for compositional single-cell data analysis
Stars: ✭ 109 (-20.44%)
Mutual labels: single-cell-rna-seq
pipeCompA R framework for pipeline benchmarking, with application to single-cell RNAseq
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Mutual labels: single-cell-rna-seq
TaijiAll-in-one analysis pipeline
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Mutual labels: single-cell-rna-seq
scRNAseq cell cluster labelingScripts to run and benchmark scRNA-seq cell cluster labeling methods
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Mutual labels: single-cell-rna-seq
arshamg-scrnaseq-wganWasserstein Generative Adversarial Network for analysing scRNAseq data
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Mutual labels: single-cell-rna-seq
squidpySpatial Single Cell Analysis in Python
Stars: ✭ 235 (+71.53%)
Mutual labels: single-cell-rna-seq
lncpipeUNDER DEVELOPMENT--- Analysis of long non-coding RNAs from RNA-seq datasets
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Mutual labels: differential-expression
NebulosaR package to visualize gene expression data based on weighted kernel density estimation
Stars: ✭ 50 (-63.5%)
Mutual labels: single-cell-rna-seq
dynmethodsA collection of 50+ trajectory inference methods within a common interface 📥📤
Stars: ✭ 94 (-31.39%)
Mutual labels: single-cell-rna-seq
cosmosRCOSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data sets.
Stars: ✭ 30 (-78.1%)
Mutual labels: transcriptomics
pipeline-pinfish-analysisPipeline for annotating genomes using long read transcriptomics data with pinfish
Stars: ✭ 27 (-80.29%)
Mutual labels: transcriptomics
