kubranarci
Bioinformatician at GHGA Workflows team/DKFZ, developing @nextflow pipelines.
@ghga-de @DKFZ-ODCF Heidelberg
Pinned Repositories
nf-aceseq
a Nextflow ACE-Seq calling and annotation pipeline based on DKFZ-ODCF/ACEseqWorkflow
nf-platypusindelcalling
This page is reserved for NextFlow based Indell Calling Workflow (with Platypus) from DKFZ
nf-snvcalling
a Nextflow SNV calling and annotation pipeline based on DKFZ-ODCF/SNVCallingWorkflow
gcb_ngs_harmonisation_workshop
Materials for NGS Harmonization Workshop at GCB 2024
ACEseqWorkflow
Allele-specific copy number estimation with whole genome sequencing
ChIPseeker
an R package for ChIP peak Annotation, Comparison and Visualization
CV
LaTex template for CV
gtf2bed
takes gtf files and creates a bed file including only ensembl gene names
heatmaply-plots
Describes how I used heatmaply package for generation of plots for network and rna-seq analysis
variantbenchmarking
A nextflow variant benchmarking pipeline - premature
kubranarci's Repositories
kubranarci/gtf2bed
takes gtf files and creates a bed file including only ensembl gene names
kubranarci/ChIPseeker
an R package for ChIP peak Annotation, Comparison and Visualization
kubranarci/heatmaply-plots
Describes how I used heatmaply package for generation of plots for network and rna-seq analysis
kubranarci/reproducible_workflows_nextflow
Materials for Reproducible Workflows with Nextflow and nf-core
kubranarci/ACEseqWorkflow
Allele-specific copy number estimation with whole genome sequencing
kubranarci/CV
LaTex template for CV
kubranarci/alignment-nf
Whole Exome/Whole Genome Sequencing alignment pipeline
kubranarci/benchmark_datasets
Benchmark datasets
kubranarci/biyoinformatik_is_akislarinda_tekrarlanabilirlik
Biyoenformatik iş akışlarında tekrarlanabilirlik konulu workshop materyallerini içerir.
kubranarci/edgeR-noReplicate
edgeR package for no replicated samples, dispersion must be hand given
kubranarci/Isoform-spesific-PI3K-inhibitor-analysis
Isoform spesific PI3K inhibitor analysis
kubranarci/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
kubranarci/multi-package-containers
Testing building mulled containers for multi-requirement tools.
kubranarci/network-utilities
Describes perl codes I used for generation of PCST networks
kubranarci/nextflow-demos
COPY Example Nextflow pipelines and programming techniques
kubranarci/PopulationAnalysis
This project contains codes in order to build meaningful charts for mostly used in population studies
kubranarci/seqmirClust
This project contains the scripts used in seqmirClust
kubranarci/SVanalyzer
Tools for the analysis of structural variation in genomes
kubranarci/test-datasets
Test data to be used for automated testing with the nf-core pipelines
kubranarci/testpipeline
A small variant calling pipeline using nf-core infrastructure and common code.
kubranarci/variant-extractor
Deterministic and standard extractor of SNVs, indels and structural variants (SVs) from VCF files.
kubranarci/variantbenchmarking
A nextflow variant benchmarking pipeline - premature
kubranarci/website
Nextflow public web site
kubranarci/workflows-nextflow
Workflow management with Nextflow and nf-core