2prev

README.md

@@ -49,7 +49,7 @@ Input file could be either in FASTQ or FASTA format, raw or GZipped.
 
 * `-q` quality threshold. Lowest quality for CDR sequences should be higher than the threshold for a clonotype to pass filter. Mutations having quality lower than the threshold are also filtered
 
-* `-l` clonotype detalizaiton level. Possible values: `0`, `1`, `2` and `0,1`, `0,1,2`, etc. At detalization level `0` clonotypes are grouped by CDR3 sequence, all mutaitons are then assembled and enumerated within clonotype. For detalization level `1` CDR1,2 and 3 sequences are used. For level `2` CDR3 sequence and all sequence mutations are used in clonotype grouping. Output will be generated for all specified levels and `outputPrefix` will be appended with `L$level.txt`
+* `-l` clonotype detalizaiton level. Possible values: `0`, `1`, `2` and `0,1`, `0,1,2`, etc. At detalization level `0` clonotypes are grouped by CDR3 sequence, all mutations are then assembled and enumerated within clonotype. For detalization level `1` CDR1,2 and 3 sequences are used. For level `2` CDR3 sequence and all sequence mutations are used in clonotype grouping. Output will be generated for all specified levels and `outputPrefix` will be appended with `L$level.txt`
 
 * `-N` take `N` first reads for analysis (useful for down-sampling)