Alternatives and similar repositories for CrossICC:

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

• quevedor2 / aneuploidy_score
  R package to calculate the Aneuploidy Score from Chromosome Arm-level SCNAs/Aneuploidies (CAAs) as outlined and expanded by Shukla et al.…
  ☆16Updated 4 years ago
• XSLiuLab / tumor-immunogenicity-score
  TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020
  ☆31Updated 3 years ago
• miccec / yaGST
  ☆13Updated 7 years ago
• icbi-lab / Immunophenogram
  ☆40Updated 7 years ago
• Niinleslie / MesKit
  A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations
  ☆36Updated 3 years ago
• ShixiangWang / Variants2Neoantigen
  A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
  ☆29Updated 5 years ago
• federicogiorgi / corto
  corto (Correlation Tool): an R package to generate correlation-based DPI networks
  ☆20Updated 2 years ago
• ait5 / CNApp
  CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-frien…
  ☆20Updated 5 years ago
• Morriseylab / scExtras
  ☆12Updated 9 months ago
• Aufiero / circRNAprofiler
  ☆10Updated this week
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆39Updated last year
• CompEpigen / ezASCAT
  Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R
  ☆11Updated 3 years ago
• amf71 / cloneMap
  An R package to plot maps of clone distributions in somatic evolution
  ☆17Updated last year
• Xiang-HF-Zhang / Dichotomous-of-innate-immune-landscape
  Dichotomous of innate immune landscape
  ☆17Updated 5 years ago
• zhiyhu / scFT-paper
  Z Hu et al. The repertoire of serous ovarian cancer non-genetic heterogeneity revealed by single-cell sequencing of normal fallopian tube…
  ☆13Updated 4 years ago
• SGDDNB / translational_regulation
  Detection of differential translated genes using Ribo-seq
  ☆15Updated 4 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆27Updated 2 years ago
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 3 years ago
• jmzeng1314 / BPscRNAseq
  ☆11Updated 6 years ago
• aslihankarabacak / FootprintPipeline
  Pipeline to find transcription factor footprints in DNase-seq or ATAC-seq datasets
  ☆12Updated 6 years ago
• crazyhottommy / scCustomize
  Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
  ☆16Updated 3 years ago
• fsvarn / GLASSx
  GLASS consortium
  ☆13Updated 2 years ago
• aet21 / EpiSCORE
  Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles
  ☆31Updated last month
• DavidQuigley / WCDT_WGBS
  West Coast Dream Team Whole Genome Bisulfite Sequencing
  ☆15Updated 4 years ago
• markowetzlab / CINSignatureQuantification
  Quantifying copy number signatures from absolute copy number profiles
  ☆24Updated last month
• PoisonAlien / somaticfreq
  knowledge-based genotyping of cancer hotspots from the tumor BAM files
  ☆21Updated 3 years ago
• ShixiangWang / gcap
  GCAP (Gene-level Circular Amplicon Prediction) firstly implements extrachromosomal DNA detection from whole-exome-sequencing (WES) data a…
  ☆19Updated 4 months ago
• KafsackLab / scRNAseq-Malaria
  Codes associated with the Poran, Nötzel et al. paper titled "Single-cell RNA-seq reveals a signature of sexual commitment in malaria para…
  ☆10Updated 7 years ago
• navinlabcode / ACT_paper
  Scripts used for the ACT paper
  ☆12Updated 4 years ago
• campbio / Manuscripts
  ☆14Updated 3 years ago