Table 3 |
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|
Parameter values used in the first application example |
|
|
Parameter |
Value |
|
|
|
|
Maximum number of mismatches at 5'-end |
3 |
|
|
|
|
Maximum number of mismatches at 3'-end |
3 |
|
|
|
|
Sequence range from the ends |
46 bp |
|
|
|
|
Continuous trimming |
Yes |
|
|
|
|
Remove sequences not matching tag sequence |
No ("don't remove") |
|
|
|
|
Minimum read length |
50 bp |
|
|
|
|
Maximum read length |
Default (maximum length) |
|
|
|
|
Threshold for occurrence of N |
5% |
|
|
|
|
Dereplicate data (remove exact sequence copies) |
Yes |
|
|
|
|
Fragment-to-fragment splitting |
Yes |
|
|
|
|
Maximum number of mismatches for splitting |
3 |
|
|
|
|
Schmieder et al. BMC Bioinformatics 2010 11:341 doi:10.1186/1471-2105-11-341 |
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