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cellgeni-rnaseq

Fast RNAseq pipeline

cov_plot_from_data

This repo explains how to generate coverage_plot pdfs using the data by https://github.com/kerimoff/leafcutter_plot pipeline

coverage_plot

This repo contains a nextflow pipeline to generate the coverage plots for QTL interpretation

ecommercewebapp

eqtl-sumstats

eQTL Catalogue Summary Statistics

esscass-2019-nlp

Materials for the NLP course at ESSCaSS 2019

fer

Code for the paper "Facial Emotion Recognition: State of the Art Performance on FER2013"

find_the_pair

flat_rubik

This is an open source project to have a 2d rubic's cube game

geffects

genimpute

Portable genotype imputation pipeline used by the eQTL Catalogue

git-novice

Software Carpentry introduction to Git for novices.

kerimoff.github.io

Personal website

mask_rcnn

Mask R-CNN for object detection and instance segmentation on Keras and TensorFlow

merge_multistudy_data

This repo is to merge genotype and phenotype daya of multiple datasets having common cell_types

mtat.03.239_bioinformatics

Teaching materials and tutorials for the bioinformatics course thought at the University of Tartu

nextflow_issue_repo

temp repo to share environment of my issues related to nextflow and singularity

nf-training

Training material for https://carpentries-incubator.github.io/workflows-nextflow/

onboarding

Onboarding materials for the Alasoo group

popassign

Principal Component Analysis on Genotype Data from Various Populations

pphn_calculator

This is a prototype of PPHN calculator

python-novice-inflammation

Software Carpentry introduction to Python for novices using inflammation data.

qtl_norm_qc

This repo contains necessary tools to run Quality Control steps for featureCounts output to detect outliers and sample mislaberling

qtlquant

pipeline repo for qtlquant

rnaseq

RNA sequencing analysis pipeline using STAR or HISAT2, with gene counts and quality control

rnaseq-nf

A proof of concept of RNAseq pipeline

susie-workflow

Nextflow workflow for applying SuSiE finemapping model to a large number of molecular QTLs

temp

wad-hw4

wiggleplotr

A small R package to make sequencing read coverage plots in R.