pchatterjee7

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

BMAC_OA_nonOA

This repository will host all the codes used to analyze the transcriptomics data from the bmac OA-nonOA publication

Bulk-RNAseq-pipeline

Bulk RNAseq data analysis pipeline from fastqs to pathways

COST-Covid19-Severity-Prediction-Tool

Covid-19 Severity Prediction tool based on NK cell Single Cell RNA expression data

GenomeAssembly

merge_large_scRNA

A simple way to merge and integrate more than 200 seurat objects with metadata using RPCA integration method

multiome

scATAC and scRNA data analysis pipeline generalized using ArchR

pathway_heatmap

To create complexheatmaps publication ready with scRNAseq gene expression GSEA

scRNA-seq-SNV

Supplementary Data and Files for PM Schnepp et al. paper

pchatterjee7/BMAC_OA_nonOA

This repository will host all the codes used to analyze the transcriptomics data from the bmac OA-nonOA publication

pchatterjee7/merge_large_scRNA

A simple way to merge and integrate more than 200 seurat objects with metadata using RPCA integration method

pchatterjee7/pathway_heatmap

To create complexheatmaps publication ready with scRNAseq gene expression GSEA

pchatterjee7/awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

pchatterjee7/Bulk-RNAseq-pipeline

Bulk RNAseq data analysis pipeline from fastqs to pathways

pchatterjee7/COST-Covid19-Severity-Prediction-Tool

Covid-19 Severity Prediction tool based on NK cell Single Cell RNA expression data

pchatterjee7/GenomeAssembly

pchatterjee7/multiome

scATAC and scRNA data analysis pipeline generalized using ArchR

pchatterjee7/scRNA-seq-SNV

Supplementary Data and Files for PM Schnepp et al. paper

pchatterjee7/Cytofin

Cytofin-an R package for CyTOF data integration

pchatterjee7/dorothea

R package to access DoRothEA's regulons

pchatterjee7/escape

Easy single cell analysis platform for enrichment

pchatterjee7/kent

UCSC Genome Browser source tree. Stable branch: "beta".

pchatterjee7/multiref_cellranger_h1n1

This is a repository outlining how to make multi-gene/multi-genome reference for human GRCh38 and influenza H1N1

pchatterjee7/muscat

Multi-sample multi-group scRNA-seq analysis tools

pchatterjee7/progeny

R package for Pathway RespOnsive GENe activity inference

pchatterjee7/scRNA-seq_online

pchatterjee7/scRNA.seq.course

Analysis of single cell RNA-seq data course

pchatterjee7/scRNAseq-analysis-notes

scRNAseq analysis notes from Ming Tang

pchatterjee7/scRNAseq_analysis_vignette

Tutorial for scRNA-seq data analysis beginners using R

pchatterjee7/seurat

R toolkit for single cell genomics

pchatterjee7/Seurat-to-RNA-Velocity

A guide to using a Seurat object in conjunction with RNA Velocity

pchatterjee7/shiny

Easy interactive web applications with R

pchatterjee7/ShinyCell

Shiny Interactive Web Apps for Single-Cell Data

pchatterjee7/spatial-analysis-

general analysis pipeline to integrate spatial transcriptomics and proteomics data

pchatterjee7/speckle

R package for analysing single cell data

pchatterjee7/tabula-muris

Code and annotations for the Tabula Muris single-cell transcriptomic dataset.

pchatterjee7/VIRTUS

A bioinformatics pipeline for viral transcriptome detection and quantification considering splicing.

pchatterjee7/VIRTUS2

A bioinformatics pipeline for viral transcriptome detection and quantification considering splicing.

pchatterjee7/WGS

WGS general pipelines including edited cells validation