Documentation provides no guidance on input files

[taltman]

The documentation doesn't explicitly state what input formats are accepted.

• FASTA format?
• DNA/RNA/oligo?
• FASTQ?
• Paired end reads mixed with non-paired end reads?
• One file or multiple files?
• File naming and extension requirements?

I have a suspicion that my Issue with a zero-gene, zero-pathway PGDB is due to having my input file(s) in the wrong format.

[ariahahn]

Hi Tomer,

Nice to e-meet you too. The input is fasta (DNA or amino acid sequences). Or gen bank. It doesn't handle fastq or RNA (it assumes if there are Us its amino acid).

Thanks. We will update the documentation.

Aria On 13 Jan 2015 13:57, "Tomer Altman" notifications@github.com wrote:

The documentation doesn't explicitly state what input formats are accepted.

• FASTA format?
• DNA/RNA/oligo?
• FASTQ?
• Paired end reads mixed with non-paired end reads?
• One file or multiple files?
• File naming and extension requirements?

I have a suspicion that my Issue with a zero-gene, zero-pathway PGDB is due to having my input file(s) in the wrong format.

— Reply to this email directly or view it on GitHub https://github.com/hallamlab/metapathways2/issues/20.