Insufficient number of observations

[srbehera11]

Can you please suggest what values should be manually assigned for resolving the following error?

[17/10/2017 11:26:33] Sorting splice-graphs by read count [17/10/2017 11:26:33] Finished sorting splice-graphs by read count

[17/10/2017 11:26:33] Spawning 1 thread(s) for fetching alignments and 1 i/o thread [17/10/2017 11:26:33] Estimating fragment length distribution from 4 transcripts longer than 2500 nucleotides ERROR: Insufficient number of observations for estimating the fragment length distribution parameters. Please specify these manually using the --frag-mean and --frag-sd options.

[lassemaretty]

Hi,

Thank you for reporting the problem. Bayesembler requires at least 1000 paired-end reads that align to single-isoform genes for estimating the length distribution of the sequencing fragments. You can try any of the following:

• If you are only running on a subset of your data, you should try running on the full set
• If you already have an idea about the mean and standard deviation of the fragment length distribution you can provide these as input using the options suggested in the error message
• If you have multiple samples that you think should have the same fragment length distribution, you could try to pool the data across samples and do a prerun of Bayesembler on the pooled data to get the estimates from the Bayesembler output and then provide these as input to runs on individual samples as described above.

I hope this helps! Best regards,

Lasse