Protocols

Parabam specifications

Information


Unique identifier OMICS_18517
Name Parabam
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input format BAM
Operating system Unix/Linux
Programming languages Python
License GNU General Public License version 3.0
Computer skills Advanced
Version 2.2.4
Stability Stable
Source code URL https://files.pythonhosted.org/packages/92/3a/3acbcd0243eeb8ee52baa7cd3f817363a689784f08b83ed6b7b655675aa4/parabam-2.0.tar.gz
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline James Farmery

Parabam citation

call_split

Crambled: A Shiny application to enable intuitive resolution of conflicting cellularity estimates

2015
F1000Res
PMCID: 4765721
PMID: 26962434
DOI: 10.5256/f1000research.8030.r11450
call_split See protocol

[…] the tumour sample, from which to create an image to load into Crambled. Such data may be purposefully sought from tools such as GATK ( www.broadinstitute.org/gatk/) , SAMtools ( www.htslib.org/) , or parabam ( parabam.readthedocs.org/). Alternatively, the information may be available as the side effect of running a somatic mutation caller. In the event that such data are not available, functions a […]

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