Vladimir (Vlad) Kiselev wikiselev
🏠
wikiselev
/ create-azure-batch-pool-nf.py
Created
December 15, 2022 16:25
A script to configure (file share and blob container mounting) and create an Azure Batch pool suitable for Nextflow Tower.
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| from azure.identity import DefaultAzureCredential | |
| from azure.mgmt.batch import BatchManagementClient | |
| import os | |
| from dotenv import load_dotenv | |
| import sys | |
| load_dotenv() | |
| AZURE_SUBSCRIPTION_ID = os.getenv('AZURE_SUBSCRIPTION_ID') | |
| AZURE_BATCH_RESOURCE_GROUP_NAME = os.getenv('AZURE_BATCH_RESOURCE_GROUP_NAME') |
wikiselev
/ easy-Report.sh
Created
November 2, 2013 22:58
Quick run of easy-Report script
All output files will be located in 'report' folder
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| git clone https://github.com/wikiselev/easy-Report.git | |
| cd easy-Report | |
| Rscript easy-Report.R script.Rmd report |
wikiselev
/ copasi_api_model_sbml_load.py
Created
January 8, 2013 15:13
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| # Acquire the model from an SBML file | |
| dataModel = CCopasiRootContainer.addDatamodel() | |
| dataModel.importSBML("model_name.xml") | |
| model = dataModel.getModel() |
wikiselev
/ IGV_snapshot_combine.tex
Created
October 19, 2012 15:57
Tex script to combine snapshot created by IGV genomic browser
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| \documentclass[landscape,letterpaper]{article} | |
| \renewcommand{\rmdefault}{phv} % Arial | |
| \setlength{\oddsidemargin}{-0.9in} | |
| \setlength{\textwidth}{10.7in} | |
| \setlength{\textheight}{7in} | |
| \setlength{\topmargin}{-1.0in} | |
| \setlength{\headsep}{0.25in} | |
| \setlength{\parskip}{1.2ex} | |
| \setlength{\parindent}{0mm} |
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| new | |
| load /Users/Vladimir/IGV/protein_list/protein1.BED,/Users/Vladimir/IGV/protein_list/protein2.BED # all other protein data files | |
| snapshotDirectory /Users/Vladimir/IGV/snapshots/ | |
| goto gene1_location | |
| snapshot gene1.png | |
| goto gene2_location |
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| # Examples of the values: | |
| gene1 # PTGS2 | |
| gene1_full_name # Prostaglandin-endoperoxide synthase 2 (COX-2) | |
| gene1_url # http://www.ncbi.nlm.nih.gov/gene/5743 | |
| gene1_location # chr1:186,640,920-186,641,060 | |
| gene2 | |
| gene2_full_name | |
| gene2_url | |
| gene2_location |