This mode is used to display statistics about files in one of the compact Goby formats (reads or alignments). It is implemented by edu.cornell.med.icb.goby.modes.CompactFileStatsMode.java.
The following options are available in this mode
|input||yes||The input filenames to to get statistics for. Compact file formats are recognized (reads or alignments)|
|number-of-quantiles||no||Number of quantiles used to characterize read length distribution.|
|n/a||no||Display detailed statistics.|
$ java -jar goby.jar --mode compact-file-stats data/reads/goby-mouse-reads-sample.compact-reads Compact reads filename = data/reads/goby-mouse-reads-sample.compact-reads Average bytes per entry: 17.256396 Average bytes per base: 0.392191 Has identifiers = false (0) Has descriptions = false (0) Has sequences = true (1,000,000) Has quality scores = false (0) Number of entries = 1,000,000 Min read length = 44 Max read length = 44 Avg read length = 44 Total number of files processed = 1 Total number of reads = 1,000,000 Min read length = 44 Max read length = 44 Avg read length = 44