Login

Make metadata manifest

Deprecated TASK
Deprecated since the version : 0.2.1
Please use Qiime2MetadataTableMaker instead
Typing name :  TASK.gws_ubiome.Qiime2MakeManifest Brick :  gws_ubiome v Parent : 

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

Optional

Type of sequencing strategy [Respectively, options : paired-end, single-end]. Default = paired-end

Type : stringAllowed values : paired-end  single-end  Default value : paired-end

forward_file_differentiator

Optional

Paired-end sequencing forward file name differanciator, e.g: sample-A_R1.fastq.gz

Type : stringDefault value : _R1

reverse_file_differentiator

Optional

Paired-end sequencing forward file name differanciator, e.g: sample-A_R2.fastq.gz

Type : stringDefault value : _R2