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Hi,
Could anyone help me figure out the following problem? Thx a lot in advance!
I am trying to update the database of a website which was built on the basis of the flat-file Gbrowse version 1.7.
(1) But after uploading both the gff3 and conf file, I found that the Gbrowse can not recognize some features in the gff3 file.
For example, as to each gene, it has ID, Name and locus_tag in the 9th column
AJKJ01000168 GenBank gene 3811 5214 . - 1 ID=C357_22370;Name=murD;locus_tag=C357_22370
whereas, the Gbrowse will only show its ID.
I want to show it "Name" on the website, too. But my configure file does not work. =(
[GENE]
feature = gene
glyph = arrow
fgcolor = red
linewidth = 2
height = 6
description = sub {
my $feature = shift;
return $feature->attributes("Name");
}
key = Annotated Genes
Is anything wrong with my codes? ~~~~(T_T)~~~~~~
(2) In addition, I found that I cannot search a gene with its Name.
It feels that the only marker for a gene is its ID.
How can I solve this problem?
Thank you very much again. I am really a green hand in this area. p_(^o^)-q
Ying S
Could anyone help me figure out the following problem? Thx a lot in advance!
I am trying to update the database of a website which was built on the basis of the flat-file Gbrowse version 1.7.
(1) But after uploading both the gff3 and conf file, I found that the Gbrowse can not recognize some features in the gff3 file.
For example, as to each gene, it has ID, Name and locus_tag in the 9th column
AJKJ01000168 GenBank gene 3811 5214 . - 1 ID=C357_22370;Name=murD;locus_tag=C357_22370
whereas, the Gbrowse will only show its ID.
I want to show it "Name" on the website, too. But my configure file does not work. =(
[GENE]
feature = gene
glyph = arrow
fgcolor = red
linewidth = 2
height = 6
description = sub {
my $feature = shift;
return $feature->attributes("Name");
}
key = Annotated Genes
Is anything wrong with my codes? ~~~~(T_T)~~~~~~
(2) In addition, I found that I cannot search a gene with its Name.
It feels that the only marker for a gene is its ID.
How can I solve this problem?
Thank you very much again. I am really a green hand in this area. p_(^o^)-q
Ying S