Read truncation can incur when sequencing reads from fragments that are shorter than the parameter READ_LENGTH. With reasonable settings it should only affect a spurious part of the reads when using heuristic filter settings, i.e., the Metropolis-Hastings MCMC algorithm used with parameter SIZE_SAMPLING= MH.
To completely avoid it ensure that Filtering is on, that the SIZE_DISTRIBUTION is not permissive for any fragments shorter than the read length, and that SIZE_SAMPLING is set to an exact filter (i.e., RJ or AC).
1 Comment
Micha Sammeth
Read truncation can incur when sequencing reads from fragments that are shorter than the parameter READ_LENGTH. With reasonable settings it should only affect a spurious part of the reads when using heuristic filter settings, i.e., the Metropolis-Hastings MCMC algorithm used with parameter SIZE_SAMPLING= MH.
To completely avoid it ensure that Filtering is on, that the SIZE_DISTRIBUTION is not permissive for any fragments shorter than the read length, and that SIZE_SAMPLING is set to an exact filter (i.e., RJ or AC).