User: annapragada.harika

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Posts by annapragada.harika

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Comment: C: dual_synteny_plotter error in MCScanx toolkit.
... Thanks for your suggestions.. I will go through the links which you have provided. java dual_synteny_plotter -g ../MADS_box/at_ca.gff -s ../MADS_box/at_ca.collinearity -c dual_synteny_MADSbox.ctl -o dual_synteny.PNG this was the command which had generated the following error Reading gff error: Fo ...
written 13 months ago by annapragada.harika0
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Comment: C: dual_synteny_plotter error in MCScanx toolkit.
... ok. thank you so much ...
written 13 months ago by annapragada.harika0
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dual_synteny_plotter error in MCScanx toolkit.
... Hello, When i'm trying to run dual_synteny plotter in MCScanX toolkit, the following error is occuring Reading gff error: For input string: "" Exception in thread "main" java.lang.NullPointerException at dual_synteny_plotter.paint(dual_synteny_plotter.java:148) at dual_synte ...
software error mcscanx tool written 13 months ago by annapragada.harika0 • updated 13 months ago by Joe14k
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Answer: A: How to run microsynteny plotter from McScan?
... It could be because of the wrong format of the Madbox_genes file. A madbox_gene family file should be in tab-delimited format with gene family name in the first column. Refer to this link https://github.com/wyp1125/MCScanX for the format which is mentioned under the subheading 9)detect_collineari ...
written 16 months ago by annapragada.harika0
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Answer: A: failed to generate a circular plot which links collinear genes within a gene fa
... I am able to rectify this issue by changing the format of the gene family file which is actually a tab delimited file. ...
written 16 months ago by annapragada.harika0
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Answer: A: format of gene family file in mcscanx
... I am able to rectify the issue by changing the format of the gene family file which is a tab delimited file. ...
written 16 months ago by annapragada.harika0
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format of gene family file in mcscanx
... can anyone let me know the format of gene family file in mcscanx toolkit. i'm trying to plot collinear genes using family_circle_plotter. i'm able to plot genomic synteny but failed to plot gene family synteny into a genomic synteny background. ...
mcscanx gene written 16 months ago by annapragada.harika0
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failed to generate a circular plot which links collinear genes within a gene family with red curved lines using family_circle_plotter.java script in McscanX toolkit
... Hi, I am trying to use family_circle_plotter.java script in MCscanx to generate a circular plot which links all collinear genes within a gene family with red curved lines. I was able to generate a circular plot but with no red curved lines in it. could someone suggest the probable reason for it ...
software error written 18 months ago by annapragada.harika0 • updated 6 months ago by Biostar ♦♦ 20

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