theHumanBorch https://www.borch.dev/ Clinical Pathologist MD/PhD 153 1 46 671 103 No Language scTregs 4 1 fishplot 1 0 Create timecourse "fish plots" that show changes in the clonal architecture of tumors GDC-tricks 1 0 tricks to use the Genomics Data Commons portal from the National Cancer Institute HLAClustRView 1 0 R package specialized in HLA typing clustering and visualization based on specific similarity metrics mtscATACpaper_reproducibility 1 0 Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020 STARTRAC 1 0 STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking) tcrpheno_analysis 1 0 Code for analysis of TCR and T cell state data in Lagattuta, et al. bioRxiv (2023) vdjdb-db 1 0 Git-based TCR database storage & management. Submissions welcome! Maier_et_al_nature_2020 0 1 This repository contains scripts used for analysis and figure generation in Maier, B., Leader, A.M., Chen, S.T. et al. A conserved dendritic-cell regulatory program limits antitumour immunity. Nature 580, 257–262 (2020). https://doi.org/10.1038/s41586-020-2134-y psupertime 0 1 psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels HTML TRGAted 9 6 Survival Analysis for Protein-Level TCGA Analysis PostScript ccRCC 20 6 Single-Cell Analysis of Immune Cells from Renal Clear Cell Carcinoma R scRepertoire 311 55 A toolkit for single-cell immune profiling escape 154 20 Easy single cell analysis platform for enrichment utility 84 7 Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR Trex 48 2 Using TCR and expression for sequence embedding Ibex 19 2 Using BCR and expression for sequence embedding immApex 8 0 Tools for immune receptor sequence-based neural networks CellPilot 4 0 exigence 3 1 TCGAcalc 0 1 Some requested analyses tools for TCGA work
