Making sense of the output. A software that deconvolutes mixed genomes with unknown proportions. Development Version From GitHub. Program parameters and options. Example of data exploration. Making sense of the output. Example of output interpretion. Provided by Read the Docs. On Read the Docs. Free document hosting provided by Read the Docs.
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DEploid — DEploid v0.3-release documentation | deploid.readthedocs.io Reviews
https://deploid.readthedocs.io
Making sense of the output. A software that deconvolutes mixed genomes with unknown proportions. Development Version From GitHub. Program parameters and options. Example of data exploration. Making sense of the output. Example of output interpretion. Provided by Read the Docs. On Read the Docs. Free document hosting provided by Read the Docs.
deploid.readthedocs.io
How it works? — DEploid v0.4-beta documentation
http://deploid.readthedocs.io/en/latest/input.html
Program parameters and options. You may also try. Example of data exploration. Making sense of the output. Program parameters and options. File path of the isolate vcf. Assume all variants are. Column, the VCF file also reqires the. In the current implementation,. Only take the first sample in the VCF file. DO NOT handle multi-allelic variants, nor indels. The. Column will not be used. File path of population level allele frequencies (tab-delimited plain text file), for example. H , -help. V , -version.
Description — DEploid v0.4-beta documentation
http://deploid.readthedocs.io/en/latest/description.html
Making sense of the output. Is designed for deconvoluting mixed genomes with unknown proportions. Traditional ‘phasing’ programs are limited to diploid organisms. Our method modifies Li and Stephen’s [Li2003]. Algorithm with Markov chain Monte Carlo (MCMC) approaches, and builds a generic framework that allows haplotype searches in a multiple infection setting. Is primarily developed as part of the Pf3k. Is used for deconvoluting mixed haplotypes, and reporting the mixture proportions from each sample.
Installation — DEploid v0.4-beta documentation
http://deploid.readthedocs.io/en/latest/installation.html
Development Version From GitHub. Making sense of the output. Is written in C . You can download the latest stable release packaged for a variety of different platform from. Development Version From GitHub. You can also install. Directly from the git repository. Here, you will need. Check whether this is already installed by running:. On Debian/Ubuntu based systems:. Apt-get install build-essential autoconf autoconf-archive libcppunit-dev. Port install automake autoconf autoconf-archive cppunit.
Example — DEploid v0.4-beta documentation
http://deploid.readthedocs.io/en/latest/example.html
Making sense of the output. Full example of working pipeline will be provided with the. Provided by Read the Docs. On Read the Docs. Free document hosting provided by Read the Docs.
Reporting Bugs — DEploid v0.4-beta documentation
http://deploid.readthedocs.io/en/latest/bug-report.html
Making sense of the output. If you encounter any problem when using. Please file a short bug report by using the issue tracker. On GitHub or email joe.zhu (at) well.ox.ac.uk. Please include the output of. And the platform you are using. On in the report. If the problem occurs while executing. Please also include the command you are using and the random seed. Provided by Read the Docs. On Read the Docs. Free document hosting provided by Read the Docs.
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DEploid — DEploid v0.3-release documentation
Making sense of the output. A software that deconvolutes mixed genomes with unknown proportions. Development Version From GitHub. Program parameters and options. Example of data exploration. Making sense of the output. Example of output interpretion. Provided by Read the Docs. On Read the Docs. Free document hosting provided by Read the Docs.
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