Pinned Repositories
qcnorm
This pipeline will run QC measures of both genotype and phenotype data and will normalise quantified phenotypes
qtlmap
Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue
rnaseq
RNA-seq quantification pipeline used by the eQTL Catalogue
susie-workflow
Nextflow workflow for applying SuSiE finemapping model to a large number of molecular QTLs
macrophage-gxe-study
Shared genetic effects on chromatin and gene expression reveal widespread enhancer priming in immune response
MTAT.03.239_Bioinformatics
Teaching materials and tutorials for the bioinformatics course thought at the University of Tartu
rasqual
Robust Allele Specific Quantification and quality controL
seqUtils
Semi-random collection of R functions to work with sequencing data.
txrevise
Construct custom transcript annotations for Salmon
wiggleplotr
A small R package to make sequencing read coverage plots in R.
kauralasoo's Repositories
kauralasoo/wiggleplotr
A small R package to make sequencing read coverage plots in R.
kauralasoo/MTAT.03.239_Bioinformatics
Teaching materials and tutorials for the bioinformatics course thought at the University of Tartu
kauralasoo/rasqual
Robust Allele Specific Quantification and quality controL
kauralasoo/macrophage-gxe-study
Shared genetic effects on chromatin and gene expression reveal widespread enhancer priming in immune response
kauralasoo/seqUtils
Semi-random collection of R functions to work with sequencing data.
kauralasoo/eQTLUtils
Collection of reusable R functions for eQTL mapping
kauralasoo/txrevise
Construct custom transcript annotations for Salmon
kauralasoo/RNAseq_pipeline
Pipeline for downloading and processing published RNA-seq datasets
kauralasoo/utils
Small scripts and wrapper around tools to deal with genomics data.
kauralasoo/WordOCR
Toy example of optical character recognition implemented with OpenCV
kauralasoo/Blood_ATAC
Reanalysis of the ATAC-Seq data from the Corces et al. 2016 paper
kauralasoo/pivotviewer.py
Tools to create PivotViewer collections in Python.
kauralasoo/ryanair-seat-allocation
How random are Ryanair's randomly allocated seats really?
kauralasoo/WigglePlotR_old
A tool to create wiggle plots from RNA-Seq in R.
kauralasoo/colocWrapper
Helpful functions to streamline colocalisation analysis with coloc
kauralasoo/flow_cytomtery_genetics
Analysis of macrophage cell surface expression of CD14, CD16 and CD206 proteins using flow cytometry.
kauralasoo/Intro-to-rnaseq-hpc-O2
This repository has teaching materials for a 2 and 3-day Introduction to RNA-sequencing data analysis workshop using the O2 Cluster
kauralasoo/macrophage-tuQTLs
kauralasoo/reviseAnnotations
R package to compare transcript annotations and split them into alternative transcription events.
kauralasoo/coexpression-transEQTL
Analysis source code for co-expression trans-eQTL analysis
kauralasoo/coloc
kauralasoo/eigenMT
An Efficient Multiple-Testing Adjustment for eQTL Studies that Accounts for Linkage Disequilibrium between Variants
kauralasoo/hadge
Comprehensive pipeline for donor demultiplexing in single cell
kauralasoo/kauralasoo.github.io
💎 🐳 A super customizable Jekyll theme for personal site, team site, blog, project, documentation, etc.
kauralasoo/knitr-example
An example of a genomics analysis using knitr
kauralasoo/merge_multistudy_data
This repo is to merge genotype and phenotype daya of multiple datasets having common cell_types
kauralasoo/mmseq
Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads
kauralasoo/Regenie-Nextflow-pipeline
kauralasoo/rmarkdown
Dynamic Documents for R
kauralasoo/rnaseq
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.