Difference between revisions of "2017 Jayern Lab note"
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== 03/10 == | == 03/10 == | ||
| + | * python parsing_primer3_output.py Vradiata.fa.ssr.p3out > Vradiata.fa.ssr.p3out.post | ||
| − | + | pyton post.parse_into_gff.py Vradiata.fa.ssr.p3out.post > Vradiata.fa.ssr.p3out.post.gff | |
| − | + | ||
| − | pyton post.parse_into_gff.py Vradiata.fa.ssr.p3out.post > Vradiata.fa.ssr.p3out.post.gff | + | |
Revision as of 05:07, 15 March 2017
Contents |
03/02
perl deconseq.pl -f 11_180bp_1.fastq -dbs chloro -i 90 -c 90
perl deconseq.pl -f 11_180bp_2.fastq -dbs chloro -i 90 -c 90
perl deconseq.pl -f 4_180bp_1.fastq -dbs chloro -i 90 -c 90
perl deconseq.pl -f 4_180bp_2.fastq -dbs chloro -i 90 -c 90
03/03
perl deconseq.pl -f V_nakashimae_2_1.fastq -dbs chloro -i 90 -c 90
perl deconseq.pl -f V_nakashimae_2_2.fastq -dbs chloro -i 90 -c 90
perl deconseq.pl -f V_nepal_1_1.fastq -dbs chloro -i 90 -c 90
perl deconseq.pl -f V_nepal_1_2.fastq -dbs chloro -i 90 -c 90
perl deconseq.pl -f V_nipp_1_1.fastq -dbs chloro -i 90 -c 90
perl deconseq.pl -f V_nipp_1_2.fastq -dbs chloro -i 90 -c 90
03/06
python PE-pairing.py filtered.V_nakashimae_2_1.fq filtered.V_nakashimae_2_2.fq
python PE-pairing.py filtered.V_nepal_1_1.fq filtered.V_nepal_1_2.fq
python PE-pairing.py filtered.V_nipp_1_1.fq filtered.V_nipp_1_2.fq
bwa index Vreflexo.fasta
03/07
<< SSR marker design >>
perl gmat.pl -r 5 -m 2 -x 10 -s 0 -i Vradiata.fa
python 01.ssr.get_seq.py Vradiata.fa.ssr
python 02.p3in.split_nParts.py Vradiata.fa.ssr.p3in
03/08
primer3_core < Vradiata.fa.ssr.p3in > Vradiata.fa.ssr.p3out
03/10
* python parsing_primer3_output.py Vradiata.fa.ssr.p3out > Vradiata.fa.ssr.p3out.post
pyton post.parse_into_gff.py Vradiata.fa.ssr.p3out.post > Vradiata.fa.ssr.p3out.post.gff
