Meeting 10.04

[PfaffS]

Variance: (VCF - File needed) Variance calling

• between the programs (CE & FP)
• within the programs
  -> all success runs which both had, restart 10x
  update 86 data sets
  GO-preprint:
  start GO new, with adjusted parameters

[iimog]

What do you mean with restart 10x?

[PfaffS]

start the success runs 10 more times on the same data, to test the variance form maybe spades etc

[iimog]

Alright, makes sense, thanks!

[greatfireball]

We discussed, that we will have two sources for variances, assembler intern and the biological variance. I just want see, how much variance do we have. So @PfaffS should compare the programs with each other and multiple pipeline runs with itself.

[greatfireball]

Maybe we need to increase the 10x to 100x or even 1000x

[greatfireball]

However, we need to avoid taking a SNP as real if it may is an artefact of the pipeline

[greatfireball]

Not mentioning the intra specimen variance