Pinned Repositories
cobrapy
COBRApy is a package for constraint-based modeling of biological networks
infotopo
A Python package for information-geometric and information-topological analysis of mathematical models
infotopo0
Information geometry and its extension information topology
knowlege-based_protein-protein_interface_design
knowledge-based protein-protein interface design code see Clark and van Vlijmen Proteins. 2008 Mar;70(4):1540-50. A knowledge-based forcefield for protein-protein interface design. http://www.ncbi.nlm.nih.gov/pubmed/17910054 please see example_1I9R/README for an example the parameter files are in example_1I9R/gofrfiles/ The code was attached to the above article with the GPLv2 http://www.gnu.org/licenses/gpl-2.0.html
nf-bacannot
fork of bacannot -- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.
nf-commonreads
nextflow pipeline for finding common reads between two bam files
nf-extractmapped
nf-readmap1
basic readmap pipeline forked from nextflow-io/elixir-workshop-21
nf-readpickn
Take the first N reads of a pair of FASTQ files and output truncated FASTQ files
stanford-corenlp-python
Python wrapper for Stanford CoreNLP tools
zigeuner's Repositories
zigeuner/stanford-corenlp-python
Python wrapper for Stanford CoreNLP tools
zigeuner/cobrapy
COBRApy is a package for constraint-based modeling of biological networks
zigeuner/infotopo
A Python package for information-geometric and information-topological analysis of mathematical models
zigeuner/infotopo0
Information geometry and its extension information topology
zigeuner/knowlege-based_protein-protein_interface_design
knowledge-based protein-protein interface design code see Clark and van Vlijmen Proteins. 2008 Mar;70(4):1540-50. A knowledge-based forcefield for protein-protein interface design. http://www.ncbi.nlm.nih.gov/pubmed/17910054 please see example_1I9R/README for an example the parameter files are in example_1I9R/gofrfiles/ The code was attached to the above article with the GPLv2 http://www.gnu.org/licenses/gpl-2.0.html
zigeuner/nf-bacannot
fork of bacannot -- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.
zigeuner/nf-commonreads
nextflow pipeline for finding common reads between two bam files
zigeuner/nf-extractmapped
zigeuner/nf-readmap1
basic readmap pipeline forked from nextflow-io/elixir-workshop-21
zigeuner/nf-readpickn
Take the first N reads of a pair of FASTQ files and output truncated FASTQ files
zigeuner/nf-subsamplebam
zigeuner/robert_campbell_pymol_scripts
advanced pymol scripts made available by Robert Campbell
zigeuner/rosetta
Tools, wrappers, etc... for data science with a concentration on text processing
zigeuner/rxnnet
A Python package for representing reaction networks and simulating their behaviors
zigeuner/sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
zigeuner/spark-py-notebooks
Apache Spark & Python (pySpark) tutorials for Big Data Analysis and Machine Learning as IPython / Jupyter notebooks
zigeuner/util
Basic utility files
zigeuner/wf-alignment
fork of epi2me's alignment
zigeuner/wikipmodel
parse + load Wikipedia dump into Spark RDD, then use in Naive Bayes model