MiCoP pipeline

MiCoP specifications

Information


Unique identifier OMICS_25991
Name MiCoP
Alternative name Microbial Community Profiling
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input format SAM
Operating system Unix/Linux
Programming languages Python
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainers


  • person_outline David Koslicki <>
  • person_outline Eleazar Eskin <>
  • person_outline Serghei Mangul <>
  • person_outline Mohammed Alser <>
  • person_outline Nathan LaPierre <>

Publication for Microbial Community Profiling

MiCoP IN pipelines

 (2)
2017
PMCID: 5420135
PMID: 28476135
DOI: 10.1186/s40168-017-0265-7

[…] values obtained during pulmonary exacerbations) following azli initiation, based on evaluation of clinical study data where short-term improvements of 2.7–10.8% were observed [5, 6, 8, 9]., microbial community profiling of sputum samples was conducted as previously described [23]. amplification of the v3 hypervariable region of the 16s ribosomal rna (rrna) gene was carried out using […]

2016
PMCID: 4725359
PMID: 26758568
DOI: 10.1038/srep18761

[…] within the lefse tool was also employed for identifying significantly differentiating features (i.e. taxa/otu’s) between the two sample classes20., how to cite this article: ganju, p. et al. microbial community profiling shows dysbiosis in the lesional skin of vitiligo subjects. sci. rep. 6, 18761; doi: 10.1038/srep18761 (2016)., the authors wish to thank manisha sharma and farina sultan […]

MiCoP institution(s)
Department of Computer Science, University of California, Los Angeles, CA, USA; Department of Human Genetics, University of California, Los Angeles, CA, USA; Department of Computer Engineering, Bilkent University, Ankara, Turkey; Department of Computer Science, Georgia State University, Atlanta, GA, USA; Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA, USA; Department of Mathematics, Oregon State University, Corvallis, OR, USA
MiCoP funding source(s)
Supported by NSF and NIH.

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