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bioconda-recipes

Conda recipes for the bioconda channel.

bioinformatics_tips

General bioinformatics tips

dlbcl_herv_atlas_gdc

documenting-sctelescope

A place to keep articles, datasets, and notes related to the development of scTELESCOPE

dopkins_jan2022

herv_scebv

Single cell data from the EBV-transformed lymphoblastoid cell line paper

herv_scgcb

Single cell data from Germinal Center B cell paper

herv_scgtex

Quantify HERVs in single nucleus RNA-seq GTEx datasets using single-cell Telescope (scTelescope)

herv_tabulasapiens

Quantify HERVs in Tabula Sapiens datasets using single-cell Telescope (scTelescope)

herv_um_mets

HERV analysis in UM metastasis

mets_cm_bulk

Bulk RNA seq analysis for responders v non-responders

nciccr

data from national cancer institute for cancer research

nixonlab.github.io

scopetools

Utility functions for working with Telescope and Stellarscope data

sctelescope

Quantify HERVs in single-cell sequencing data

snakemake-wrappers

This is the development home of the Snakemake wrapper repository, see

snakemake_references

snakemake_rule_library

A place to share generic "best practices" rules for the lab

stellarscope

Single-cell Transposable Element Locus Level Analysis of scRNA Sequencing

stellarscope_bug_reproduce

stellarscope_simulation

Simulations for testing Stellarscope

stellarscopetools

tcga_skcm_mets

The Repository to download, STAR_align, TELESCOPE and Process DE for Mets vs. Non-mets TCGA CM Bulk-RNAseq

te_riboseq_atlas

A transposable element atlas of ribo-seq data from multiple tissue types. (Project ID: PRJNA756018)

teabiscuit

Transposable Element Analysis in BraIn, Single Cell, and Ubiquitous Tissues

telescopetools

What the Package Does (One Line, Title Case)

wcm_scu

Notes about working with WCM SCU Resources