Maintenance - Mise à jour mensuelle Lundi 7 Décembre 2021 entre 7h00 et 9h00

Commit 5c22fe71 authored by Joanna Fourquet's avatar Joanna Fourquet
Browse files

change order in multiqc report

parent b7bf5654
...@@ -29,11 +29,21 @@ module_order: ...@@ -29,11 +29,21 @@ module_order:
- sickle: - sickle:
path_filters: path_filters:
- '*_sickle.log' - '*_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: - samtools:
name : 'Reads aln on host genome' name : 'Reads aln on host genome'
info: 'This section of the cleaned reads alignement against host genome with bwa.' info: 'This section of the cleaned reads alignement against host genome with bwa.'
path_filters: path_filters:
- '*host_filter/*' - '*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: - fastqc:
name: 'FastQC (cleaned)' name: 'FastQC (cleaned)'
info: 'This section of the report shows FastQC results after adapter trimming and cleaning.' info: 'This section of the report shows FastQC results after adapter trimming and cleaning.'
...@@ -45,26 +55,16 @@ module_order: ...@@ -45,26 +55,16 @@ module_order:
info: 'This section of the report shows quast results after assembly' info: 'This section of the report shows quast results after assembly'
path_filters: path_filters:
- '*_all_contigs_QC/*' - '*_all_contigs_QC/*'
- samtools: - quast:
name : 'Reads before host reads filter' name: 'Quast filtered assembly'
info: 'This section reports of the reads alignement against host genome with bwa.(not sure to be interesting ????)' info: 'This section of the report shows quast results after filtering of assembly'
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 ????)'
path_filters: path_filters:
- '*.host_filter.flagstat' - '*_select_contigs_QC/*'
- samtools: - samtools:
name : 'Reads after deduplication' name : 'Reads after deduplication'
info: 'This section reports of deduplicated reads alignement against contigs with bwa.' info: 'This section reports of deduplicated reads alignement against contigs with bwa.'
path_filters: path_filters:
- '*.count_reads_on_contigs.flagstat' - '*.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 - prokka
- featureCounts - featureCounts
......
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