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tcga_clinical_2_csv

合并tcga网站上下载的clinical xml文件到一个csv

tcga_dbgap

tcga_example

tcr

[DEPRECATED, see https://immunarch.com/] tcR: an R package for immune receptor repertoire advanced data analysis.

tcr-analysis

tcr-classifier

Classifier to determine CD8+ T-cell receptor characteristics underlying peptide recognition.

tcr-seq_benchmarking_publication

techxuexi

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telescope

Quantification of transposable element expression using RNA-seq

telescopeencode

telocal

A package for quantifying transposable elements at a locus level for RNAseq datasets.

temp

TEMP is a software package for detecting transposable elements (TEs) insertions and excisions from pooled high-throughput sequencing data

tepeaks

Package for including repetitive regions in peak calling from ChIP-seq datasets

tesmall

A pipeline for profiling TE-derived small RNAs

tetranscripts

A package for including transposable elements in differential enrichment analysis of sequencing datasets.

tf_map

the-craft-of-selfteaching

One has no future if one couldn't teach themself.

tidepy

TIDE (Tumor Immune Dysfunction and Exclusion), a gene expression biomarker to predict the clinical response to immune checkpoint blockade in Python.

tidybulk

Brings transcriptomics to the tidyverse

tilpred

Tumor-Infiltrating CD8 Lymphocytes states prediction

tindaisy-core

Core somatic caller scripts based on SomaticWrapper CWL branch

tmescore

Calculate Tumor microenvironment score

tophat

Spliced read mapper for RNA-Seq

tpjm_sim

Simulation of a longitudinal and survival dataset, estimation of a TPJM as long as one-part models and plot the survival conditional on treatment arm.

traj

Revised functions of the R packages crimCV and traj

transnetdemo

R package for an introduction to transkingdom network analysis

treeshapedrearrangements

Code and data from Koche et al. (under review)

trimgalore

A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data

trinityfusion

TrinityFusion software

trust4

TCR and BCR assembly from RNA-seq data