Hello Jennifer:
Thank you so much for the descriptions, and for sharing the method to check
that the difference in line count is appropriate.
Sincerely,
Lindsay Rutter
On Tue, Nov 12, 2013 at 7:09 PM, Jennifer Jackson j...@bx.psu.edu wrote:
Hi Lindsay,
Nice to hear that Vipin's server
Vipin and Jennifer:
Thank you both very much for your helpful information here!
Sincerely,
Lindsay
On Mon, Nov 11, 2013 at 11:33 AM, Vipin TS vipin...@gmail.com wrote:
Hi,
I am the author for fml_gff3togtf tool package, currently merged into
our instance at
http://galaxy.cbio.mskcc.org,
Hi Lindsay,
Nice to hear that Vipin's server worked out for you.
A reduction in the number of lines is completely expected. You should
have the same number of lines in the BED12 file as you have unique IDs
in the GFF3 file, if you want to double check. This is the same as the
number of
Hello Galaxy:
I am trying overall to convert a .gff3 file to 12-column .bed file.
I first tried GFF-to-BED converter, but it gave a 6-column .bed file.
Then, I tried BED-to-bigBed converter by inputting the 6-column .bed file.
I get an error Unspecified genome build, click the pencil icon in
Hello,
There are no tools directly on the public Galaxy site to transform a
GFF3 dataset into a BED12 dataset. However, the Tool Shed has a
repository called ' fml_gff3togtf' that includes a tool for this
purpose, for use in a local install. The description is a bit bothersome
in that it a
Hi,
I am the author for fml_gff3togtf tool package, currently merged into our
instance at
http://galaxy.cbio.mskcc.org, The tool can be accessed with following link:
https://galaxy.cbio.mskcc.org/tool_runner?tool_id=fml_gff2bed
--/Vipin
Sloan-Kettering Institute
http://galaxy.cbio.mskcc.org
On
