zqzneptune

cfrac

A R package for deciphering protein-protein interactions (PPIs) and protein complexes from biomedical fractionation profiles.

ShinyCITExpresso

A ShinyApp for visualization and explorering Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-seq) data

affyio

Updated version to handle CEL files

awsome-cell-annotation

BabuLab

Website for BabuLab

BenchElution

Benchmark software packages for scoring biochmical fractionation co-elution data

RefInt

RefInt: A curated reference interactome with true positives and negatives for benchmarking protein-protein interactions.

RunEPIC

Run EPIC to predict PPI and macro molecular assemblies from co-elution Data

SMAD

Latest update of Bioconductor package SMAD

SMED

Statistical Modelling of co-Elution Data to infer protein-protein interactions

zqzneptune.github.io

Personal Github Webpage

Bioinformatics

Bioinformatics analysis scripts, workflows, general code examples

bulk_RNA-seq

Best practices, scripts and workflows for performing bulk RNA-seq expression analyses

callpeaks

Custom peak caller for CUT&TAG data

CALN_EU

CALN website

copykat

gene_annotations

MSblender

Forked from marcottelab/MSblender. Details

ppiAPMS

[Deprecated]Protein-protein interaction from AP-MS data (ppiAPMS) Please use SMAD(http://bioconductor.org/packages/release/bioc/html/SMAD.html)

RNAexpresso

R package for transcriptome analysis

RRNA-seq

R pipeline for RNA-seq analysis with Salmon

safe-R

R implementation of the Spatial Analysis of Functional Enrichment (SAFE) algorithm

SalmonTools

Useful tools for building Salmon Index

scMultiome_analysis_vignette

Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis

wccsom

Archived package from CRAN