Difference between revisions of "2017 May Taeyoung Lab note"
From Crop Genomics Lab.
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==Novel seq== | ==Novel seq== | ||
1. Align using mrFast | 1. Align using mrFast | ||
+ | |||
2. assemble unmapped read using AbySS | 2. assemble unmapped read using AbySS | ||
+ | |||
3. running novelseq | 3. running novelseq | ||
+ | |||
/alima9002/program/novelseq-upload$ ./novel_cluster /alima9002/novelseq/raw CS-12.W82.mrfast.OEA.all.sam Gmax.275.sat.parsed /alima9002/novelseq/raw/chr /alima9002/novelseq/raw/CS-12.fastq.trimmed /alima9002/novelseq/raw/CS-12.W82.mrfast.out.all.ins.size 100000000 | /alima9002/program/novelseq-upload$ ./novel_cluster /alima9002/novelseq/raw CS-12.W82.mrfast.OEA.all.sam Gmax.275.sat.parsed /alima9002/novelseq/raw/chr /alima9002/novelseq/raw/CS-12.fastq.trimmed /alima9002/novelseq/raw/CS-12.W82.mrfast.out.all.ins.size 100000000 | ||
+ | |||
+ | ==5.29== | ||
+ | ===BEASTgene=== | ||
+ | /data2/alima90/program/BEASTGen/bin/beastgen template_JTT_G.xml 11.10.fa.nexus > 11.10.fa.xml |
Latest revision as of 05:16, 27 June 2017
Novel seq
1. Align using mrFast
2. assemble unmapped read using AbySS
3. running novelseq
/alima9002/program/novelseq-upload$ ./novel_cluster /alima9002/novelseq/raw CS-12.W82.mrfast.OEA.all.sam Gmax.275.sat.parsed /alima9002/novelseq/raw/chr /alima9002/novelseq/raw/CS-12.fastq.trimmed /alima9002/novelseq/raw/CS-12.W82.mrfast.out.all.ins.size 100000000
5.29
BEASTgene
/data2/alima90/program/BEASTGen/bin/beastgen template_JTT_G.xml 11.10.fa.nexus > 11.10.fa.xml