Introduction Feature Frequency Table importer Feature Table importer Make metadata manifest Metagenome seq env task old_Q2FeatureInferenceSE Q2FeatureInferencePE Q2FeatureInferenceSE Q2GreengenesDiversity Q2NCBIDiversity Q2QualityCheck Q2RarefactionAnalysis Q2RDPDiversity Q2SilvaDiversity Qiime single-end sample frequencies Qiime1 env task Qiime2 ANCOM differential analysis Qiime2 env task Qiime2 feature frequencies (paired-end) Qiime2 manifest table exporter Qiime2 manifest table importer Qiime2 metadata table exporter Qiime2 metadata table importer Qiime2 metadata table maker Qiime2 rarefaction analysis Qiime2 taxa composition annotator Quality Table importer Rarefaction Table importer Taxonomy Table importer Taxonomy Table importer Version
Technical Documentation
Resources
Tasks
Make metadata manifest
Creates metadata file from a fastq folder.
Qiime2MakeManifest class.
[Mandatory]: - fastq_folder must contains all fastq files (paired or not).
- This task create a gencovery's Constellab metadata file from a fastq folder. User can add metadata information in a tab formated table after the first three columns:
For paired-end files :
#author:
#data:
#project:
#types_allowed:categorical or numeric
#metadata-type categorical categorical
sample-id forward-absolute-filepath reverse-absolute-filepath
sample-1 sample0_R1.fastq.gz sample1_R2.fastq.gz
sample-2 sample2_R1.fastq.gz sample2_R2.fastq.gz
sample-3 sample3_R1.fastq.gz sample3_R2.fastq.gz
For single-end files :
#author:
#data:
#project:
#types_allowed:categorical or numeric
#metadata-type categorical
sample-id absolute-filepath
sample-1 sample0.fastq.gz
sample-2 sample2.fastq.gz
sample-3 sample3.fastq.gz
Input
Output
Configuration
sequencing_type
Type of sequencing strategy [Respectively, options : paired-end, single-end]. Default = paired-end
string
paired-end
single-end
paired-end
forward_file_differentiator
Paired-end sequencing forward file name differanciator, e.g: sample-A_R1.fastq.gz
string
_R1
reverse_file_differentiator
Paired-end sequencing forward file name differanciator, e.g: sample-A_R2.fastq.gz
string
_R2