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genotoul-bioinfo
metagWGS
Commits
5c22fe71
Commit
5c22fe71
authored
Feb 24, 2021
by
Joanna Fourquet
Browse files
change order in multiqc report
parent
b7bf5654
Changes
1
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Inline
Side-by-side
assets/multiqc_config.yaml
View file @
5c22fe71
...
...
@@ -29,11 +29,21 @@ module_order:
-
sickle
:
path_filters
:
-
'
*_sickle.log'
-
samtools
:
name
:
'
Reads
before
host
reads
filter'
info
:
'
This
section
reports
of
the
reads
alignement
against
host
genome
with
bwa.(not
sure
to
be
interesting
????)'
path_filters
:
-
'
*.no_filter.flagstat'
-
samtools
:
name
:
'
Reads
aln
on
host
genome'
info
:
'
This
section
of
the
cleaned
reads
alignement
against
host
genome
with
bwa.'
path_filters
:
-
'
*host_filter/*'
-
samtools
:
name
:
'
Reads
after
host
reads
filter'
info
:
'
This
section
reports
of
the
cleaned
reads
alignement
against
host
genome
with
bwa.(not
sure
to
be
interesting
????)'
path_filters
:
-
'
*.host_filter.flagstat'
-
fastqc
:
name
:
'
FastQC
(cleaned)'
info
:
'
This
section
of
the
report
shows
FastQC
results
after
adapter
trimming
and
cleaning.'
...
...
@@ -45,26 +55,16 @@ module_order:
info
:
'
This
section
of
the
report
shows
quast
results
after
assembly'
path_filters
:
-
'
*_all_contigs_QC/*'
-
samtools
:
name
:
'
Reads
before
host
reads
filter'
info
:
'
This
section
reports
of
the
reads
alignement
against
host
genome
with
bwa.(not
sure
to
be
interesting
????)'
path_filters
:
-
'
*.no_filter.flagstat'
-
samtools
:
name
:
'
Reads
after
host
reads
filter'
info
:
'
This
section
reports
of
the
cleaned
reads
alignement
against
host
genome
with
bwa.(not
sure
to
be
interesting
????)'
-
quast
:
name
:
'
Quast
filtered
assembly'
info
:
'
This
section
of
the
report
shows
quast
results
after
filtering
of
assembly'
path_filters
:
-
'
*
.host_filter.flagstat
'
-
'
*
_select_contigs_QC/*
'
-
samtools
:
name
:
'
Reads
after
deduplication'
info
:
'
This
section
reports
of
deduplicated
reads
alignement
against
contigs
with
bwa.'
path_filters
:
-
'
*.count_reads_on_contigs.flagstat'
-
quast
:
name
:
'
Quast
filtered
assembly'
info
:
'
This
section
of
the
report
shows
quast
results
after
filtering
of
assembly'
path_filters
:
-
'
*_select_contigs_QC/*'
-
prokka
-
featureCounts
...
...
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