You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
Copy file name to clipboardExpand all lines: README.md
+2-2Lines changed: 2 additions & 2 deletions
Display the source diff
Display the rich diff
Original file line number
Diff line number
Diff line change
@@ -7,7 +7,7 @@ This tool is designed to provide fast all-in-one preprocessing for FastQ files.
7
7
* correct mismatched base pairs in overlapped regions of paired end reads, if one base is with high quality while the other is with ultra low quality
8
8
* report JSON format result for further interpreting.
9
9
* visualize quality control and filtering results on a single HTML page (like FASTQC but faster and more informative).
10
-
* split the output to multiple files (0001.R1.gz, 0002.R1.gz...) to support parallel processing. Two modes can be used, limiting the total splitted file number, or limitting the lines of each splitted file.
10
+
* split the output to multiple files (0001.R1.gz, 0002.R1.gz...) to support parallel processing. Two modes can be used, limiting the total split file number, or limitting the lines of each split file.
11
11
* support long reads (data from PacBio / Nanopore devices).
12
12
* ...
13
13
@@ -97,7 +97,7 @@ options:
97
97
-w, --thread worker thread number, default is 3 (int [=3])
98
98
99
99
# output splitting options
100
-
-s, --split split output by limiting total splitted file number with this option (2~999), a sequential number prefix will be added to output name ( 0001.out.fq, 0002.out.fq...), disabled by default (int [=0])
100
+
-s, --split split output by limiting total split file number with this option (2~999), a sequential number prefix will be added to output name ( 0001.out.fq, 0002.out.fq...), disabled by default (int [=0])
101
101
-S, --split_by_lines split output by limiting lines of each file with this option(>=1000), a sequential number prefix will be added to output name ( 0001.out.fq, 0002.out.fq...), disabled by default (long [=0])
102
102
-d, --split_prefix_digits the digits for the sequential number padding (1~10), default is 4, so the filename will be padded as 0001.xxx, 0 to disable padding (int [=4])
Copy file name to clipboardExpand all lines: src/main.cpp
+1-1Lines changed: 1 addition & 1 deletion
Original file line number
Diff line number
Diff line change
@@ -67,7 +67,7 @@ int main(int argc, char* argv[]){
67
67
cmd.add<int>("thread", 'w', "worker thread number, default is 3", false, 3);
68
68
69
69
// split the output
70
-
cmd.add<int>("split", 's', "split output by limiting total splitted file number with this option (2~999), a sequential number prefix will be added to output name ( 0001.out.fq, 0002.out.fq...), disabled by default", false, 0);
70
+
cmd.add<int>("split", 's', "split output by limiting total split file number with this option (2~999), a sequential number prefix will be added to output name ( 0001.out.fq, 0002.out.fq...), disabled by default", false, 0);
71
71
cmd.add<long>("split_by_lines", 'S', "split output by limiting lines of each file with this option(>=1000), a sequential number prefix will be added to output name ( 0001.out.fq, 0002.out.fq...), disabled by default", false, 0);
72
72
cmd.add<int>("split_prefix_digits", 'd', "the digits for the sequential number padding (1~10), default is 4, so the filename will be padded as 0001.xxx, 0 to disable padding", false, 4);
0 commit comments