Pinned Repositories
ChromatinSplicingQTLs
cookiecutter-wflowR-smk
cookiecutter template of workflowR combined with snakemake pipeline in code
design-mpeseq-primers
For designing RT primers with blast search, tm constraints, etc
dotfiles
dot files
GenometracksByGenotype
Helper script to plot molQTLs. Normalize and group bigwigs by genotype.
LabProtocols
leafcutter_ds_pipeline
recurrent-splicing-identification
running leaf cutter from snaptron data to identify differential splice events, esp those associate with SF3B1
SmallMoleculeRNASeq
RNAseq analysis of small molecule splicing modifiers
snakemake-workflow_rna-seq
Basic RNA-seq snakemake workflow. Use as a module for larger workflows.
bfairkun's Repositories
bfairkun/cookiecutter-wflowR-smk
cookiecutter template of workflowR combined with snakemake pipeline in code
bfairkun/design-mpeseq-primers
For designing RT primers with blast search, tm constraints, etc
bfairkun/GenometracksByGenotype
Helper script to plot molQTLs. Normalize and group bigwigs by genotype.
bfairkun/LabProtocols
bfairkun/leafcutter_ds_pipeline
bfairkun/recurrent-splicing-identification
running leaf cutter from snaptron data to identify differential splice events, esp those associate with SF3B1
bfairkun/SmallMoleculeRNASeq
RNAseq analysis of small molecule splicing modifiers
bfairkun/ChromatinSplicingQTLs
bfairkun/dotfiles
dot files
bfairkun/snakemake-workflow_rna-seq
Basic RNA-seq snakemake workflow. Use as a module for larger workflows.
bfairkun/.vim
my .vim and vimrc
bfairkun/201907_mpe-seq_processing
align and deduplicate paired reads from MPE-seq protocol
bfairkun/align-reads-walkthrough
basic alignment commands for getting used to ngs processing on midway. mpe-seq data used as example.
bfairkun/apaQTL
Project for apaQTL MS
bfairkun/cheRNA_pilot
Exploratory analysis of chromatin enriched RNAs from LCLs
bfairkun/cola-seq_bp_calling
Snakemake pipeline for calling BPs from CoLa-see data
bfairkun/Comparative_eQTL
Primary data: Chimp eQTLs called from heart tissue samples
bfairkun/cookiecutter-pypackage
Cookiecutter template for a Python package.
bfairkun/eigenMT
An Efficient Multiple-Testing Adjustment for eQTL Studies that Accounts for Linkage Disequilibrium between Variants
bfairkun/example-rmd-templates
📄 A selection of minimal examples used to highlight R Markdown templates, as referred to in the "R Markdown Definitive Guide"
bfairkun/ire1-sars
bfairkun/leafcutter
Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. Pritchard
bfairkun/pandoc_resume
The Markdown Resume
bfairkun/Pangolin
Pangolin is a deep-learning method for predicting splice site strengths.
bfairkun/rna-seq-dhx38
Analysis of RNA-seq from ipsc derived neurons
bfairkun/rna-seq_simplequantification
snakemake workflowr project for basic RNA-seq processing
bfairkun/sandbox
bfairkun/snaptron-analysis
analysis of sf3b1 splicing
bfairkun/sQTL
pipeline i used for calling sQTL in chimps
bfairkun/YouCompleteMe
A code-completion engine for Vim