Alternatives and similar repositories for CRISPRcleanR

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

• riazn / bms038_analysis
  Code and additional processed data for manuscript "Tumor and Microenvironment Evolution during Immunotherapy with Nivolumab"; see for man…
  ☆52Updated 7 years ago
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆42Updated 4 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 7 years ago
• saezlab / transcriptutorial
  This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL
  ☆56Updated 2 years ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆55Updated 4 years ago
• pachterlab / kallisto-transcriptome-indices
  Reference transcriptome indices build from kallisto for popular organisms
  ☆44Updated last year
• francescojm / ADAM
  Adaptive Daisy Model to discriminate core-fitness/context-specific essential genes in large scale CRISPR-Cas9 screens
  ☆24Updated 6 years ago
• reimandlab / ActivePathways
  Integrative pathway enrichment analysis of multivariate omics data
  ☆117Updated 4 months ago
• JEFworks / liger
  Lightweight Iterative Gene set Enrichment in R
  ☆57Updated last year
• PierreBSC / Viral-Track
  ☆62Updated 5 years ago
• WubingZhang / MAGeCKFlute
  Integrative analysis pipeline for pooled CRISPR functional genetic screens
  ☆31Updated last year
• BaderLab / Cytoscape_workflows
  collection of notebooks with different cytoscape workflows
  ☆50Updated 2 years ago
• HumanCellAtlas / skylab
  Soon to be deprecated in favor of broadinstitute/warp github repo. Previously: Secondary analysis pipelines
  ☆48Updated 8 months ago
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆54Updated 4 years ago
• huangyh09 / brie
  BRIE: Bayesian Regression for Isoform Estimate in Single Cells
  ☆42Updated last year
• antigenomics / vdjmatch
  ⚙️ Matching T-cell repertoire against a database of TCR antigen specificities
  ☆39Updated 7 years ago
• LieberInstitute / recount3
  Explore and download data from the recount3 project
  ☆36Updated last month
• GoekeLab / proActiv
  Estimation of Promoter Activity from RNA-Seq data
  ☆56Updated 4 months ago
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆79Updated 8 months ago
• cboix / EPIMAP_ANALYSIS
  Epimap processing and analysis code repository
  ☆33Updated 3 years ago
• cole-trapnell-lab / cicero-release
  ☆59Updated last year
• shenorrLabTRDF / bseqsc
  Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline
  ☆46Updated 2 years ago
• rhondabacher / ISMB2019_SingleCellTutorial
  Tutorials and code for ISMB 2019 short course on Recent Advances in Statistical Methods and Computational Algorithms for Single-Cell Omic…
  ☆41Updated 6 years ago
• wjawaid / enrichR
  An R interface to enrichR
  ☆93Updated 9 months ago
• lagelab / quack
  Machine learning algorithm to predict biological pathway relationships based on functional genomics networks
  ☆20Updated 7 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆32Updated 3 years ago
• McGranahanLab / TcellExTRECT
  ☆47Updated 10 months ago
• indrops / indrops
  Pipeline for processing inDrops sequencing data
  ☆76Updated 7 years ago
• YeoLab / outrigger
  Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data
  ☆67Updated 5 years ago
• Nik-Zainal-Group / signature.tools.lib
  R package containing useful functions for mutational signature analysis
  ☆86Updated last week