Alternatives and similar repositories for CSI-Microbes-analysis:

Users that are interested in CSI-Microbes-analysis are comparing it to the libraries listed below

• ruppinlab / CSI-Microbes-identification
  Code for the identification step for CSI-Microbes
  ☆27Updated 3 months ago
• ncrna / PathogenTrack
  A pipeline to identify pathogenic microorganisms from scRNA-seq raw data.
  ☆27Updated last year
• sjdlabgroup / Census
  Accurate, deep, fast, and fully-automated scRNA-seq cell-type annotation
  ☆12Updated last month
• FredHutch / Galeano-Nino-Bullman-Intratumoral-Microbiota_2022
  Analysis code used in Galeano Nino et al., Impact of Intratumoral Microbiota on Spatial and Cellular Heterogeneity in human cancer. 2022
  ☆37Updated last year
• omicsCore / scTyper
  scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
  ☆29Updated 2 years ago
• abodein / timeOmics
  Time-Course Multi-Omics data integration
  ☆24Updated 10 months ago
• sjdlabgroup / SAHMI
  ☆74Updated 6 months ago
• knightlab-analyses / mycobiome
  Pan-cancer mycobiome atlas
  ☆24Updated 2 years ago
• blekhmanlab / host_gene_microbiome_interactions
  Analysis framework for integrating gut microbiome and host gene expression data
  ☆32Updated 2 years ago
• ruppinlab / tcga-microbiome-prediction
  Predictive models and analysis of cancer prognosis and drug response using primary tumor microbial abundances derived from WGS and RNA-se…
  ☆15Updated 3 months ago
• shizhuoxing / scISA-Tools
  single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…
  ☆23Updated 7 months ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆56Updated 4 years ago
• SGDDNB / translational_regulation
  Detection of differential translated genes using Ribo-seq
  ☆15Updated 3 years ago
• ElkonLab / scAPA
  This is a package and a shell script for alternative polyadenylation (APA) analysis of 3' tag single-cell RNA-seq data.
  ☆19Updated 3 years ago
• noush-joglekar / scisorseqr
  scisorseqr is an R-package for processing of single-cell long read data and analyzing differential isoform expression across any two cond…
  ☆36Updated last year
• maxsonBraunLab / cutTag-pipeline
  Pipeline for Cut&Tag analysis
  ☆17Updated last month
• YosefLab / ImpulseDE2
  ☆36Updated 2 years ago
• abdohlman / tcma_code
  Software used to develop the TCMA database associated with 10.1016/j.chom.2020.12.001.
  ☆12Updated last year
• Japrin / scPip
  A pipeline for scRNA-seq data analysis
  ☆12Updated this week
• benben-miao / TOmicsVis
  Transcriptomics Visualization R package.
  ☆69Updated last year
• pachterlab / kallisto-transcriptome-indices
  Reference transcriptome indices build from kallisto for popular organisms
  ☆42Updated last year
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆55Updated 2 weeks ago
• NBISweden / workshop-RNAseq
  Workshop • Analysis of RNA-seq data
  ☆35Updated 11 months ago
• xuzhougeng / RNA-seq-downstream-analysis
  Arabidopsis RNA_-seq downstream analysis shiny app
  ☆31Updated 5 years ago
• hamidghaedi / Enrichment-Analysis
  From RNA-seq raw reads to enriched pathways by DEGs
  ☆32Updated 10 months ago
• rhysnewell / ChIP-R
  Assessing the reproducibility of proccessed ChIP-seq peaks
  ☆12Updated 3 years ago
• lusystemsbio / NetAct
  Network construction Algorithm
  ☆20Updated 5 months ago
• Xinglab / CLAM
  CLIP-seq Analysis of Multi-mapped reads
  ☆29Updated 3 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆26Updated 2 years ago
• PriceLab / Multiomics-BMI
  This repository includes the code used in our multiomics BMI study.
  ☆16Updated last year