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biopet.biopet
Commits
5bed902a
Commit
5bed902a
authored
Jul 28, 2015
by
Peter van 't Hof
Browse files
Upgrade to new version of mkdocs config
parent
38ec7a1d
Changes
1
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Inline
Side-by-side
mkdocs.yml
View file @
5bed902a
site_name
:
Biopet User Manual
pages
:
-
[
'
index.md'
,
'
Home'
]
-
[
'
general/config.md'
,
'
General'
,
'
Config'
]
-
[
'
pipelines/basty.md'
,
'
Pipelines'
,
'
Basty'
]
-
[
'
pipelines/bam2wig.md'
,
'
Pipelines'
,
'
Bam2Wig'
]
-
[
'
pipelines/carp.md'
,
'
Pipelines'
,
'
Carp'
]
-
[
'
pipelines/gentrap.md'
,
'
Pipelines'
,
'
Gentrap'
]
-
[
'
pipelines/shiva.md'
,
'
Pipelines'
,
'
Shiva'
]
-
[
'
pipelines/flexiprep.md'
,
'
Pipelines'
,
'
Flexiprep'
]
-
[
'
pipelines/mapping.md'
,
'
Pipelines'
,
'
Mapping'
]
-
[
'
pipelines/sage.md'
,
'
Pipelines'
,
'
Sage'
]
-
[
'
pipelines/toucan.md'
,
'
Pipelines'
,
'
Toucan'
]
-
[
'
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'
]
-
[
'
tools/VepNormalizer.md'
,
'
Tools'
,
'
VepNormalizer'
]
-
[
'
tools/WipeReads.md'
,
'
Tools'
,
'
WipeReads'
]
-
Home
:
'
index.md'
-
General
:
-
Config
:
'
general/config.md'
-
Pipelines
:
-
Basty
:
'
pipelines/basty.md'
-
Bam2Wig
:
'
pipelines/bam2Wig.md'
-
Carp
:
'
pipelines/carp.md'
-
Gentrap
:
'
pipelines/gentrap.md'
-
Shiva
:
'
pipelines/shiva.md'
-
Flexiprep
:
'
pipelines/flexiprep.md'
-
Mapping
:
'
pipelines/mapping.md'
-
Toucan
:
'
pipelines/toucan.md'
-
Sage
:
'
pipelines/sage.md'
-
Tools
:
-
SamplesTsvToJson
:
'
tools/SamplesTsvToJson.md'
-
BastyGenerateFasta
:
'
tools/bedtointerval.md'
-
BedToInterval
:
'
tools/bedtointerval.md'
-
BedtoolsCoverageToCounts
:
'
tools/bedtoolscoveragetocounts.md'
-
BiopetFlagstat
:
'
tools/BiopetFlagstat.md'
-
CheckAllelesVcfInBam
:
'
tools/CheckAllelesVcfInBam.md'
-
ExtractAlignedFastq
:
'
tools/ExtractAlignedFastq.md'
-
FastqSplitter
:
'
tools/FastqSplitter.md'
-
FindRepeatsPacBio
:
'
tools/FindRepeatsPacBio.md'
-
VcfFilter
:
'
tools/VcfFilter.md'
-
MpileupToVcf
:
'
tools/MpileupToVcf.md'
-
Sagetools
:
'
tools/sagetools.md'
-
VepNormalizer
:
'
tools/VepNormalizer.md'
-
WipeReads
:
'
tools/WipeReads.md'
-
BastyGenerateFasta
:
'
tools/BastyGenerateFasta.md'
-
Release notes
:
-
0.4.0
:
'
release_notes_0.4.0.md'
-
0.3.2
:
'
release_notes_0.3.2.md'
-
0.3.1
:
'
release_notes_0.3.1.md'
-
0.3.0
:
'
release_notes_0.3.0.md'
-
About
:
'
about.md'
-
License
:
'
license.md'
#- ['developing/Setup.md', 'Developing', 'Setting up your local development environment']
-
[
'
release_notes_0.4.0.md'
,
'
Release
notes'
,
'
0.4.0'
]
-
[
'
release_notes_0.3.2.md'
,
'
Release
notes'
,
'
0.3.2'
]
-
[
'
release_notes_0.3.1.md'
,
'
Release
notes'
,
'
0.3.1'
]
-
[
'
release_notes_0.3.0.md'
,
'
Release
notes'
,
'
0.3.0'
]
-
[
'
about.md'
,
'
About'
]
-
[
'
license.md'
,
'
License'
]
#theme: readthedocs
repo_url
:
https://git.lumc.nl/biopet/biopet
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