Alternatives and similar repositories for DEP2:

Users that are interested in DEP2 are comparing it to the libraries listed below

• bzhanglab / OmicsEV
  A tool for large scale omics datasets evaluation
  ☆24Updated last year
• jeffsocal / tidyproteomics
  An S3 data object and framework for common quantitative proteomic analyses
  ☆40Updated last month
• bartongroup / Proteus
  R package for analysing proteomics data
  ☆49Updated last year
• alexyermanos / Platypus
  R package for the analysis of single-cell immune repertoires
  ☆42Updated last month
• saezlab / transcriptutorial
  This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL
  ☆55Updated last year
• const-ae / proDA
  Protein Differential Abundance for Label-Free Mass Spectrometry https://const-ae.github.io/proDA/
  ☆19Updated last year
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆41Updated 4 years ago
• saezlab / cosmosR
  COSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data…
  ☆59Updated 2 weeks ago
• liulab-dfci / RIMA_pipeline
  ☆78Updated last year
• shenorrLabTRDF / bseqsc
  Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline
  ☆45Updated last year
• broadinstitute / Celligner_ms
  Code related to the Celligner manuscript
  ☆46Updated 4 years ago
• guokai8 / scGSVA
  scGSVA: Perform GSVA for single cell RNA seq
  ☆55Updated 4 months ago
• lagelab / Genoppi
  Genoppi: an open-source software for robust and standardized integration of proteomic and genetic data
  ☆26Updated 10 months ago
• DavisLaboratory / msImpute
  Methods for label-free mass spectrometry proteomics
  ☆14Updated this week
• wmacnair / SampleQC
  Robust, multivariate, multi-sample, multi-celltype QC for single cell RNA-seq data
  ☆37Updated 2 years ago
• McGranahanLab / TcellExTRECT
  ☆47Updated 2 months ago
• gexijin / idepGolem
  ☆38Updated 3 weeks ago
• nf-core / scflow
  Please consider using/contributing to https://github.com/nf-core/scdownstream
  ☆24Updated 9 months ago
• kerseviciute / aPEAR
  Enrichment Networks for Pathway Enrichment Analysis
  ☆44Updated last year
• KChen-lab / METAFlux
  ☆61Updated 8 months ago
• kenichi-shimada / depmap-analysis
  This repostory contains codes for Shimada et al., "A tool for browsing the Cancer Dependency Map reveals functional connections between g…
  ☆13Updated 3 years ago
• ucdavis-bioinformatics-training / 2017_2018-single-cell-RNA-sequencing-Workshop-UCD_UCB_UCSF
  2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF
  ☆36Updated 6 years ago
• riazn / bms038_analysis
  Code and additional processed data for manuscript "Tumor and Microenvironment Evolution during Immunotherapy with Nivolumab"; see for man…
  ☆51Updated 7 years ago
• SGI-LungCancer / SingleCell
  Code repository for single cell RNA-seq
  ☆34Updated 4 years ago
• cansysbio / ConsensusTME
  ConsensusTME Gene Sets and R Script
  ☆39Updated 9 months ago
• rnabioco / djvdj
  An R package to analyze single-cell V(D)J data
  ☆24Updated last year
• AllonKleinLab / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆36Updated 5 years ago
• rpolicastro / scProportionTest
  ☆61Updated last year
• hukai916 / scATACpipe
  ☆27Updated 5 months ago
• almeidasilvaf / BioNERO
  Easy and comprehensive biological network reconstruction and analysis
  ☆27Updated 5 months ago