taoziyu97's repositories
INDEL_signature
about insertion and deletion in cancer exon genome
changes-in-insulin-granules-
short description of repository
hugo-future-imperfect-slim
Multilingual Blogging Theme for Hugo | Check the Wiki for Documentation
maftools
Summarize, Analyze and Visualize MAF files from TCGA or in house studies.
prad_signature
Prostate Cancer Alteration Signature Analysis
pumpkin-book
《机器学习》（西瓜书）公式推导解析，在线阅读地址：https://datawhalechina.github.io/pumpkin-book
R-work
Collect and organize all my own R scripts in study process
sigminer
🌲 An easy-to-use and scalable toolkit for genomic alteration signature (a.k.a. mutational signature) analysis and visualization in R
sigminer.helper
Helper package for Sigminer
SignatureAnalyzer-GPU
GPU implementation of ARD NMF
SigProfilerExtractor
SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
SigProfilerMatrixGenerator
SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations only to parts for the genome (e.g., exome or a custom BED file). The tool seamlessly integrates with other SigProfiler tools.
sra-tools
SRA Tools
TCGAmutations
R data package for pre-compiled somatic mutations from TCGA cohorts (from Broad Firehose and TCGA MC3 Project)
TIDEpy
TIDE (Tumor Immune Dysfunction and Exclusion), a gene expression biomarker to predict the clinical response to immune checkpoint blockade in Python.
tidytuesday
Official repo for the #tidytuesday project
Workshop
课题组每周研讨会