Fwd: SNPs by accession track

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Fwd: SNPs by accession track

v singh
Dear All,

I want to upload a track with 250+ subtracks for displaying SNPs in samples , called  ‘SNPs by accession’ track. I generated a gff for the same looking like this —


### gff-version 3 

### source VCF file -->Example.vcf 

Ca1 Example.vcf SNP 32031 32031 . + . acgt=0 0 1 0;ref=C; line=Karab_062A;Name=cicar.line.kphxhfd

Ca1 Example.vcf SNP 32031 32031 . + . acgt=0 0 1 0;ref=C; line=Karab_062A_x_96029_02;Name=cicar.line.eq315e0

Ca1 Example.vcf SNP 32031 32031 . + . acgt=0 0 1 0;ref=C; line=Karab_062A_x_96029_03;Name=cicar.line.my4unk7

Ca1 Example.vcf SNP 32031 32031 . + . acgt=0 0 1 0;ref=C; line=Karab_062A_x_96029_16;Name=cicar.line.5wtysew

Ca1 Example.vcf SNP 32031 32031 . + . acgt=0 0 1 0;ref=C; line=Karab_062A_x_96029_23;Name=cicar.line.1jsnidx

Ca1 Example.vcf SNP 32031 32031 . + . acgt=0 0 2 0;ref=C; line=S2Drd_107B;Name=cicar.line.6ley7td


Here’s what I used in the config file —


[SNPbyAcc]

database     = snplines

feature      = SNP

glyph        = triangle

point        = 1

orient       = N

height       = 5

label        = 1

bgcolor      = blue

subtrack select   = Line tag_value line ;

subtrack table   =  96029;

  Bari1_092;

  Bari1_092_x_96029_01;

  Bari1_092_x_96029_02;

  Bari1_092_x_96029_03;

  Bari1_092_x_96029_05;

  Bari1_092_x_96029_07;

  Bari1_092_x_96029_08;

  Bari1_092_x_96029_09;

 

This track loads alright without the subtrack select option. once I choose the subtrack select option… essentially no data is displayed .. please see attached pdf . It will be a great help, if you can help diagnose what I’m doing wrong here. 

Many Thanks,

Vasantika

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subtrack-snpsbyaccession.pdf (244K) Download Attachment