Question: Scripture Visualisation Tool Help Please
0
gravatar for User 7998
9.1 years ago by
User 7998140
User 7998140 wrote:

Hi,

When I try to view my .bed file with IGV it appears to be showing the entire chromosome rather than the region specified using -start and -end. If anyone knows what might be causing this and how to resolve a solution would be greatly appreciated.

Regards,

Kevin

visualization • 1.5k views
ADD COMMENTlink modified 8.9 years ago by Pierre Lindenbaum129k • written 9.1 years ago by User 7998140

What do you mean by -start -end ? Can't you zoom in and out with the -and + buttons?

ADD REPLYlink written 9.1 years ago by Istvan Albert ♦♦ 84k
1
gravatar for Pierre Lindenbaum
8.9 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum129k wrote:

Something like that ? The following script should tell IGV to go to the two genomic positions and to take some pictures that will be saved in /tmp/igv.

$cat script.sh

mkdir -p /tmp/igv
sleep 2
echo "snapshotDirectory /tmp/igv"
sleep 2
echo "goto chr3:100"
sleep 2
echo "snapshot"
sleep 2
echo "goto chr3:200-300"
sleep 2
echo "snapshot"
sleep 2

$ sh  script.sh |  telnet 127.0.0.1 60151
ADD COMMENTlink written 8.9 years ago by Pierre Lindenbaum129k

@Pierre : Is there a way to invoke "sleep" within IGV batch script...any comments?

ADD REPLYlink modified 7.6 years ago • written 7.6 years ago by Rm8.0k
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