bpucker
Professor at Uni Bonn with research interests in plant genomics and specialized metabolism. Details: https://www.pbb.uni-bonn.de
Plant Biotechnology and Bioinformatics, Institute of Cellular and Molecular Botany (IZMB), University of BonnGermany
Pinned Repositories
AppliedGenomeResearch
course about NGS data processing: genomics and transcriptomics
APPLS
Applied Python Programming for Life Scientists
KIPEs
Knowledge-based Identification of Pathway Enzymes (KIPEs) performs an automatic annotation of the flavonoid biosynthesis steps in a new transcriptome of genome sequence assembly.
MGSE
Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.
MYB_annotator
This tool performs an automatic identification, annotation, and analysis of the MYB gene family in plants. It can be applied to new transcriptome of genome assemblies.
Overview
Overview of repositories associated with @bpucker & @PuckerLab. This covers science communication projects, the developed bioinformatics tools, teaching activities, and project specific repositories.
PBBtools
collection of mini tools for the BioinfToolServer
PythonTUBS
Python introduction for life scientists
RNA-Seq_analysis
scripts for RNA-Seq analysis
teaching
This repository gives an overview of my teaching activities. Links to slides and data sets are included. Feel free to re-use my content.
bpucker's Repositories
bpucker/AppliedGenomeResearch
course about NGS data processing: genomics and transcriptomics
bpucker/RNA-Seq_analysis
scripts for RNA-Seq analysis
bpucker/APPLS
Applied Python Programming for Life Scientists
bpucker/MolecularMethodsInGenomeResearch
practical course about lab methods in genome research
bpucker/yam
scripts associated with yam genome assembly
bpucker/LongReadWalker
closing gaps in long read assemblies by long read walking
bpucker/bananaMYB
scripts associated with the genome-wide analysis of MYBs in the banana genome
bpucker/teaching_concepts
Teaching concept collection
bpucker/AppliedPlantGenomics
materials and scripts used for Applied Plant Genomics
bpucker/GKseq
scripts for Arabidopsis thaliana resequencing analyses
bpucker/MtMYBs
scripts associated with the genome-wide investigation of MYBs in Medicago
bpucker/vivi-bud-dev
collection of scripts related to the bud development study in Vitis vinifera
bpucker/AhaGenome
script associated with A. halleri genome assembly
bpucker/banana
bpucker/banana_transcriptomics
scripts associated with banana transcriptomics
bpucker/BnaGeneticMarkers
analysis and mapping of genetic markers in Brassica napus
bpucker/CaMYBs
investigation of the R2R3 MYBs in Cicer arietinum
bpucker/codon_usage
script associated with codon usage
bpucker/DataLiteracyInPlantSciences
scripts and data sets associated with Data Literacy in Plant Sciences course
bpucker/orthogroups
script related to the filtering and analysis of orthogroups in the Caryophyllales
bpucker/pbb-wetlab
wet lab methods used in the group
bpucker/pitaya
script associated with pitaya re-analysis
bpucker/selfie
all script associated with gf-selfie
bpucker/spark
bpucker/VitisGenomics
bpucker/AthaMap
script associated with the AthaMap database
bpucker/figures
collection of figures to display on github
bpucker/pbb-drylab
dry lab methods used in the group
bpucker/SyntenyMYB
synteny analysis of MYBs
bpucker/Tillandsioideae