Alternatives and similar repositories for tumor-microbiome

Users that are interested in tumor-microbiome are comparing it to the libraries listed below

• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• LuyiTian / FLAMES
  Full-length transcriptome splicing and mutation analysis
  ☆85Updated last year
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆61Updated 4 years ago
• ncrna / PathogenTrack
  A pipeline to identify pathogenic microorganisms from scRNA-seq raw data.
  ☆28Updated 2 years ago
• mhalushka / miRge3.0
  Comprehensive analysis of small RNA sequencing data
  ☆34Updated 7 months ago
• AAlhendi1707 / countToFPKM
  Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)
  ☆63Updated 4 years ago
• yyoshiaki / VIRTUS2
  A bioinformatics pipeline for viral transcriptome detection and quantification considering splicing.
  ☆19Updated 2 years ago
• bjmt / universalmotif
  Motif manipulation functions for R.
  ☆30Updated 3 months ago
• junchaoshi / sports1.1
  Small non-coding RNA annotation Pipeline Optimized for rRNA- and tRNA-Derived Small RNAs
  ☆53Updated 5 months ago
• gxiaolab / REDITs
  RNA editing tests
  ☆17Updated 5 years ago
• s-andrews / sradownloader
  A script to make downloading of SRA/GEO data easier
  ☆33Updated 2 years ago
• shunliubio / easym6A
  Process m6A/MeRIP-seq data in a single or batch job mode
  ☆20Updated 5 years ago
• Xinglab / CLAM
  CLIP-seq Analysis of Multi-mapped reads
  ☆31Updated 4 years ago
• ruppinlab / CSI-Microbes-identification
  Code for the identification step for CSI-Microbes
  ☆31Updated last year
• OlgaVT / Alternative-Splicing-Tools
  A list of alternative splicing analysis resources
  ☆46Updated 9 months ago
• gatk-workflows / gatk4-rnaseq-germline-snps-indels
  Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools
  ☆83Updated 4 years ago
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆56Updated 4 years ago
• gxiaolab / mountainClimber
  ☆20Updated 6 years ago
• a-velt / Mfuzz_RNAseq
  A R script to perform clustering of gene expression time-series RNA-seq data with Mfuzz.
  ☆23Updated 6 years ago
• GangLiLab / genekitr
  🧬 Gene analysis toolkit based on R
  ☆60Updated 11 months ago
• shiquan / PISA
  A collection of tools to process single-cell omics datasets.
  ☆51Updated 7 months ago
• brwnj / fastq-multx
  Demultiplexes a fastq.
  ☆48Updated 5 years ago
• 10XGenomics / cellranger-atac
  ☆22Updated 4 years ago
• tushiqi / MAnorm2
  MAnorm2 for Normalizing and Comparing ChIP-seq Samples
  ☆31Updated 3 years ago
• zhejilab / RibORF
  Identifying genome-wide translated open reading frames using ribosome profiling
  ☆24Updated 2 years ago
• mdozmorov / RNA-seq_notes
  A continually expanding collection of RNA-seq tools
  ☆53Updated 2 months ago
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆42Updated 4 years ago
• broadinstitute / gistic2
  Genomic Identification of Significant Targets in Cancer (GISTIC), version 2
  ☆53Updated 3 years ago
• chaolinzhanglab / ctk
  CLIP Tool Kit (CTK)
  ☆21Updated last year
• GoekeLab / proActiv
  Estimation of Promoter Activity from RNA-Seq data
  ☆56Updated 5 months ago