mkdocs.yml 1.51 KB
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site_name: Biopet User Manual
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pages:
- ['index.md', 'Home']
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- ['general/config.md', 'General', 'Config']
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- ['pipelines/basty.md', 'Pipelines', 'Basty']
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- ['pipelines/bam2wig.md', 'Pipelines', 'Bam2Wig']
- ['pipelines/carp.md', 'Pipelines', 'Carp']
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- ['pipelines/gentrap.md', 'Pipelines', 'Gentrap']
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- ['pipelines/shiva.md', 'Pipelines', 'Shiva']
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- ['pipelines/flexiprep.md', 'Pipelines', 'Flexiprep']
- ['pipelines/mapping.md', 'Pipelines', 'Mapping']
- ['pipelines/sage.md', 'Pipelines', 'Sage']
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- ['pipelines/toucan.md', 'Pipelines', 'Toucan']
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- ['tools/SamplesTsvToJson.md','Tools','SamplesTsvToJson']
- ['tools/BastyGenerateFasta.md','Tools','BastyGenerateFasta']
- ['tools/bedtointerval.md','Tools','BedToInterval']
- ['tools/bedtoolscoveragetocounts.md','Tools','BedtoolsCoverageToCounts']
- ['tools/BiopetFlagstat.md','Tools','BiopetFlagstat']
- ['tools/CheckAllelesVcfInBam.md','Tools','CheckAllelesVcfInBam']
- ['tools/ExtractAlignedFastq.md','Tools','ExtractAlignedFastq']
- ['tools/FastqSplitter.md', 'Tools','FastqSplitter']
- ['tools/FindRepeatsPacBio.md','Tools','FindRepeatsPacBio']
- ['tools/VcfFilter.md','Tools','VcfFilter']
- ['tools/MpileupToVcf.md', 'Tools', 'MpileupToVcf']
- ['tools/sagetools.md', 'Tools', 'Sagetools']
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- ['tools/VepNormalizer.md', 'Tools', 'VepNormalizer']
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- ['tools/WipeReads.md', 'Tools', 'WipeReads']
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#- ['developing/Setup.md', 'Developing', 'Setting up your local development environment']
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- ['about.md', 'About']
- ['license.md', 'License']
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#theme: readthedocs
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repo_url: https://git.lumc.nl/biopet/biopet