msalaciak

bbplot

R package that helps create and export ggplot2 charts in the style used by the BBC News data team

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2020

freebayes

Bayesian haplotype-based genetic polymorphism discovery and genotyping.

norns

norns is many sound instruments.

awesome-nextflow

A curated list of nextflow based pipelines

vcf2maf

Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms

hdWGCNA

High dimensional weighted gene co-expression network analysis

scRNA-tools

Table of software for the analysis of single-cell RNA-seq data.

MAESTRO

Single-cell Transcriptome and Regulome Analysis Pipeline

cNMF

Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data

tableone

R package to create "Table 1", description of baseline characteristics with or without propensity score weighting

awesome_spatial_omics

tools and notes for spatial omics

copykat

vartrix

Single-Cell Genotyping Tool

hmftools

Various algorithms for analysing genomics data

escape

Easy single cell analysis platform for enrichment

conga

Clonotype Neighbor Graph Analysis

singleCellHaystack

Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).

schex

ALRA

Imputation method for scRNA-seq based on low-rank approximation

scWGCNA

scWGCNA

Trex

Using TCR and expression for sequence embedding

SCAFE

Single Cell Analysis of Five'Ends

KeywordsEnrichment

IMCDataAnalysis

R based workflow for multiplexed imaging data

DALI

R-package for the analysis of single-cell TCR/BCR data in the Seurat ecosystem

STvEA

Spatially-resolved Transcriptomics via Epitope Anchoring

scala2mts

Convert Scala files to SysEx files for use with the Prophet rev2 and Cirklon, etc.

hsslda

EMD601_ML_guest_lecture