To make the construction of sample manifest more explicit, use a sample name parameter to map each sample explicitly rather than using the r1/r2 name prefixes or directories.
Comment
I can envision a situation where the samples are named by user differently than the sample prefix found in fastq. For example:
parameterType
shortName
Parameter1
Parameter2
fastqFile
SampleX
SampleY_S1_L001_R1_001.fastq.gz
SampleY_S1_L001_R2_001.fastq.gz
@kamyshova Please let me know if you think this is a safe approach? Or if I am missing / interfering with a use case.
Proposal
To make the construction of sample manifest more explicit, use a sample name parameter to map each sample explicitly rather than using the r1/r2 name prefixes or directories.
Comment I can envision a situation where the samples are named by user differently than the sample prefix found in fastq. For example:
@kamyshova Please let me know if you think this is a safe approach? Or if I am missing / interfering with a use case.
Shu