Pinned Repositories
Bestie
wdl hts-analysis
DigitalBarcodeReadgroups
Create readgroups from barcodes with random nucleotides incorporates into them. This is a git for noting down the results.
fastqtl
Enhanced version of the FastQTL QTL mapper
mmterpstra's Repositories
mmterpstra/DigitalBarcodeReadgroups
Create readgroups from barcodes with random nucleotides incorporates into them. This is a git for noting down the results.
mmterpstra/fastqtl
Enhanced version of the FastQTL QTL mapper
mmterpstra/apigenome
Libraries and command-line utilities for big data genomic analysis
mmterpstra/BA-BarcodeAnalysis
The scripts used for the analysis of the 33nt barcode data.
mmterpstra/CombineVariantsWorkflow
Small workflow for combining variants from multiple sources
mmterpstra/compute5
my molgenis compute5 stuff linked under a single repo
mmterpstra/compute_pp
mmterpstra/DotFiles
DotFiles
mmterpstra/easyconfigs-foss2016a
Easyconfigs for easy(re)building
mmterpstra/grabix
a wee tool for random access into BGZF files.
mmterpstra/jupyter-themes
Custom Jupyter Notebook Themes
mmterpstra/log4perl
Log4j Implementation For Perl
mmterpstra/lumpy-sv
lumpy: a general probabilistic framework for structural variant discovery
mmterpstra/manta
Structural variant and indel caller for mapped sequencing data
mmterpstra/molgenis
MOLGENIS - for scientific data: management, exploration, integration and analysis.
mmterpstra/molgenis-c5-RnaGemini
RnaGemini Reference based RNA-seq analysis
mmterpstra/molgenis-c5-varscanCnv
mmterpstra/molgenis-compute
MOLGENIS Compute is a framework for bioinformatics which enables large scale data and computational workflow management in a distributed execution environment.
mmterpstra/molgenis-pipelines
Pipelines for NGS, imputation, gwas, ...
mmterpstra/mpileup2readcounts
Get per-nucleotide readcounts from samtools mpileup
mmterpstra/needlestack
Multi-sample somatic variant caller
mmterpstra/NGS_Demultiplexing
mmterpstra/NGS_RNA
mmterpstra/perlIncludeVcf.pm
mmterpstra/perlSnippets
Some pieces of perl code developed during my free time and during my education. Focused on NGS analysis of miRNA's and general tools.
mmterpstra/PiCAST
PiCAST turns your $35 Raspberry Pi in to a Chromecast like Device.
mmterpstra/PlotGenome
mmterpstra/samtools
Tools (written in C using htslib) for manipulating next-generation sequencing data
mmterpstra/STAR
RNA-seq aligner
mmterpstra/UPDio