Our own data alignment and analysis: Difference between revisions

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>Shicheng
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>Shicheng
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Line 8: Line 8:
  cat s_*_2_Indx$i.txt.gz > Indx$i.read2.fq.gz &
  cat s_*_2_Indx$i.txt.gz > Indx$i.read2.fq.gz &
  done
  done
* [[RD>90 and Len>80bp Regions]]


=== Trim_galore ===
=== Trim_galore ===

Revision as of 23:12, 1 September 2016


fastq merge by indx

for i in {01,02,04,05,06,07,09,10,11,12}
do
cat s_*_1_Indx$i.txt.gz > Indx$i.read1.fq.gz &
cat s_*_2_Indx$i.txt.gz > Indx$i.read2.fq.gz &
done
  • [[RD>90 and Len>80bp Regions]]

Trim_galore

bismark alignment

RD>10 Regions