Changes between Version 1 and Version 2 of SOPs/trimming_mapping_shortReads

Timestamp:

10/31/25 16:49:58 (2 days ago)

Author:

kdesilva

Comment:

--

SOPs/trimming_mapping_shortReads

@@ -9 +9 @@
 
 {{{
-bsub "fastx_clipper -a CTGTAGGCACCATCAAT -i s2_sequence.txt -v -l 22 -o s2_sequence_noLinker.txt"
+sbatch --job-name=fastx --wrap="fastx_clipper -a CTGTAGGCACCATCAAT -i s2_sequence.txt -v -l 22 -o s2_sequence_noLinker.txt"
 In the above command: 
    -a CTGTAGGCACCATCAAT is the linker sequence
@@ -29 +29 @@
  
 {{{
-bsub "fastx_trimmer -f 1 -l 22  -i s7_sequence_clipped.txt -o  s7_sequence_clipped_trimmed.txt"
+sbatch --job-name=fastx_trimmer --wrap="fastx_trimmer -f 1 -l 22  -i s7_sequence_clipped.txt -o  s7_sequence_clipped_trimmed.txt"
       
 [-i INFILE]  = FASTA/Q input file. default is STDIN.