BioWardrobe specifications

Information


Unique identifier OMICS_09734
Name BioWardrobe
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Artem Barski <>

Information


Unique identifier OMICS_09734
Name BioWardrobe
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Artem Barski <>

Publication for BioWardrobe

BioWardrobe in publications

 (6)
PMCID: 5587533
PMID: 28878348
DOI: 10.1038/s41598-017-11175-3

[…] af4798 antibody. chip-seq library was prepared using chipmentation procedure and libraries were sequenced using illumina hiseq. 2500 at cchmc sequencing core. data analysis was performed using the biowardrobe platform. briefly, chip-seq reads were aligned by bowtie to the mouse genome (mm10); only unique reads with no more than one mismatch were kept. reads were extended to estimated fragment […]

PMCID: 5215294
PMID: 28054639
DOI: 10.1038/srep39785

[…] (h3k27ac). antibody specificity was assessed by the manufacturers and/or in a previous study. sequencing for 36–75 bases was performed using illumina gaii/x/hiseq2500. data analysis was conducted in biowardrobe. briefly, chip-seq data were aligned by bowtie to the human genome (hg19); only unique reads with no more than 1 mismatch were kept. reads were extended to estimated fragment length, […]

PMCID: 5161694
PMID: 27580035
DOI: 10.1038/nature19348

[…] -size 500 mindist 1000”. chip-seq heat plot was generated in r using heatplot utility from bioconductor package “made4”. for visualization, rna and chip-seq were processed and aligned to mm10 using biowardrobe (which requires mm10). tracks were displayed using ucsc genome browser., the data sets are reposited in geo as a superseries under gse70245. icgs ordered cells and gene expression […]

PMCID: 4867636
PMID: 27181215
DOI: 10.1038/srep26061

[…] libraries were sequenced on an illumina hiseq2500 in rapid mode, generating 20 million or more high quality 75 base long paired end reads per sample. rna-seq data analysis was performed using biowardrobe platform (http://biowardrobe.com). briefly, reads were aligned to the mm10 genome with rna-star provided with refseq annotation and rpkm values were calculated by biowardrobe. […]

PMCID: 4508805
PMID: 26198001
DOI: 10.1186/s12915-015-0159-8

[…] rnapii, and kcr in wt, ps, and rs were downloaded (accession numbers: [srx336649], [srx336652], [gsm1104368], [gsm1104372], [gsm810675], and [gsm810678]) [, , ]., data analysis was performed in biowardrobe experiment management system [, ]. briefly, reads were aligned to the mouse genome (mm10) with bowtie (version 1.0.0 []) and fragment length was estimated with macs [] and displayed […]


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BioWardrobe institution(s)
Division of Allergy and Immunology, Cincinnati Children’s Hospital Medical Center and Department of Pediatrics, College of Medicine, University of Cincinnati, Cincinnati, OH, USA; Division of Human Genetics, Cincinnati Children’s Hospital Medical Center and Department of Pediatrics, College of Medicine, University of Cincinnati, Cincinnati, OH, USA

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