Pinned Repositories
arrayHowTo
A very simple walkthrough of DNA methylation microarray processing with SeSAMe and minfi.
biscuiteer
tools for analysing Biscuit (https://huishenlab.github.io/biscuit/) output
chromophobe
a package to handle ChromHMM (http://compbio.mit.edu/ChromHMM/) and similar segmentation models in R
compartmap
Chromatin compartment inference from ATACseq, RNAseq, and DNA methylation
cropcircle
metabolomics imputation, factorization, manipulation
MTseeker
mitochondrial variant analysis tools
rehash
idiotically simple translucent data sharing for Bioconductor data structures
spiky
trichelab.github.io
Organization site on github.io (supposedly)
velocessor
velocity processor
The Triche Lab's Repositories
trichelab/MTseeker
mitochondrial variant analysis tools
trichelab/biscuiteer
tools for analysing Biscuit (https://huishenlab.github.io/biscuit/) output
trichelab/spiky
trichelab/velocessor
velocity processor
trichelab/bamSliceR
Slice and dice controlled-access BAMs for thousands of samples
trichelab/compartmap
Chromatin compartment inference from ATACseq, RNAseq, and DNA methylation
trichelab/cropcircle
metabolomics imputation, factorization, manipulation
trichelab/h5testR
simplistic package for HDF5-related testing in R/Bioconductor
trichelab/spikeR
Some best practices for using spike-in controls in various single-cell and bulk assays
trichelab/chromophobe
a package to handle ChromHMM (http://compbio.mit.edu/ChromHMM/) and similar segmentation models in R
trichelab/plotfly
plotly automation for various dimension reduction swappage
trichelab/Schiele
Like Seurat, but for people with less than 1024GB of RAM
trichelab/trichelab.github.io
Organization site on github.io (supposedly)
trichelab/biscuiteerData
trichelab/cell-census
CELLxGENE Cell Census
trichelab/enmity
loading scNMT raw(-ish) data
trichelab/ExpDesign2021
A package to ensure that all dependencies are installed for Experimental Design & Biostats practical sessions. Scroll down to the README for installation details.
trichelab/Fig2
Rmarkdown output
trichelab/GEMLI
GEMLI fork
trichelab/pluto-sdk-R
R package for interacting with the Pluto API
trichelab/RcppML
Rcpp Machine Learning: Fast robust NMF, divisive clustering, and more
trichelab/scGate
marker-based purification of cell types from single-cell RNA-seq datasets
trichelab/scing
SCING: Single-Cell pIpeliNe Garden (pronounced as "sing" /siŋ/)
trichelab/single_cell_analyses
Examples to help bootstrap your analysis of single cell data sets
trichelab/singlet
Single-cell analysis with non-negative matrix factorization
trichelab/sturgeon
trichelab/tbmate
TabixMate: a companion tool that works with tabix to enable coordinate-date decoupling.
trichelab/tbmater
tabixmate R wrapper
trichelab/UMIcountR
trichelab/WorldsSimplestCodeReview
The importance of replication and the unimpeachable virtues of self-correcting science