msalaciak

scala2mts

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

EMD601_ML_guest_lecture

bbplot

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

scRNA-tools

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

tableone

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

STvEA

Spatially-resolved Transcriptomics via Epitope Anchoring

awesome-nextflow

A curated list of nextflow based pipelines

IMCDataAnalysis

R based workflow for multiplexed imaging data

awesome_spatial_omics

tools and notes for spatial omics

KeywordsEnrichment

hmftools

Various algorithms for analysing genomics data

vcf2maf

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

norns

norns is many sound instruments.

DALI

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

scWGCNA

scWGCNA

hdWGCNA

High dimensional weighted gene co-expression network analysis

copykat

vartrix

Single-Cell Genotyping Tool

freebayes

Bayesian haplotype-based genetic polymorphism discovery and genotyping.

singleCellHaystack

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

schex

SCAFE

Single Cell Analysis of Five'Ends

Trex

Using TCR and expression for sequence embedding

escape

Easy single cell analysis platform for enrichment

ALRA

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

MAESTRO

Single-cell Transcriptome and Regulome Analysis Pipeline

hsslda

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2020

cNMF

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

conga

Clonotype Neighbor Graph Analysis