Export: Export a file of each sample for the seismic-graph web app

Export: Input files

Export input file: Table files

You can give any number of table files of masked or clustered reads as inputs:

mask-per-pos.csv
mask-per-read.csv
clust-per-pos.csv
clust-per-read.csv
clust-freq.csv

See List Input Files for ways to list multiple files. (SEISMIC-RNA will just ignore relate-per-pos.csv/relate-per-read.csv.gz files.)

To export all data for all samples in the output directory {out}, you could use the command

seismic export {out}

To export all data for sample {sample} in the output directory {out}, you could use the command

seismic export {out}/{sample}

To export only masked data for reference {ref} in the output directory {out}, you could use the command

seismic export {out}/*/{ref}/*/mask*

Export: Settings

Export setting: Metadata

You can add arbitrary metadata for each sample using --samples-meta (-S) followed by a file containing Metadata for Samples. You can add arbitrary metadata for each reference using --refs-meta (-R) followed by a file containing Metadata for References.

SEISMIC-RNA expects you to include metadata, so if you do not, then it will log a warning (but will still export the data without metadata).

Export: Output files

Export output file: Sample results

The file of sample results goes into the top-level output directory {out}. See Sample results: Export data from SEISMIC-RNA to SEISMIC-GRAPH for information on this file.