User: LGMgeo

gravatar for LGMgeo
LGMgeo90
Reputation:
90
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Trusted
Location:
European Union
Last seen:
1 month ago
Joined:
4 years, 5 months ago
Email:
v*****************@inserm.fr

Posts by LGMgeo

<prev • 30 results • page 1 of 3 • next >
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Comment: C: 1000Genome SV integrated map's power for SV filter
... For 2 days, we experienced some technical problems with our network, so that you can not access the AnnotSV website. I apologize for any inconvenience that may be caused by this temporary interruption. ...
written 3 months ago by LGMgeo90
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Answer: A: Using AnnotSV to annotate XHMM output
... ANNOTSV is the environment variable defining the installation path of the software. • In csh, you can define it with the following command line: setenv ANNOTSV /path_of_AnnotSV_installation/bin • In bash, you can define it with the following command line: Export ANNOTSV=/path_of_AnnotSV_installati ...
written 3 months ago by LGMgeo90
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Comment: C: Annotation for SV and CNV
... Could you please explain more? Can you give an input/output example of what you wish? ...
written 5 months ago by LGMgeo90
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Answer: A: annotation of SV (Structural Variants)
... I suggest using AnnotSV for SV annotation (annotation with gene names and locations, OMIM, DGV, 1000g, haploinsufficiency, TAD, ... and also with your own in-house information). AnnotSV constructs an annotation based on the full-length SV but also an annotation for each gene within the SV. You will ...
written 8 months ago by LGMgeo90
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Comment: C: annotation of SV (structural variants)
... I suggest using AnnotSV for SV annotation (with OMIM, DGV, 1000g, haploinsufficiency, TAD, ... and also with your own in-house information) You can look at this post describing the annotSV tool: https://www.biostars.org/p/196944/ ...
written 8 months ago by LGMgeo90
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Comment: C: Methods of classifying, not detecting, structural variation?
... - To identify how similar a structural variant (SV) is to a known variant from DGV, 1000g or DECIPHER, I suggest using AnnotSV. You can look at this post describing the annotSV tool: https://www.biostars.org/p/196944/ - Else, if you want to identify similar SV detected from different callers, I ad ...
written 8 months ago by LGMgeo90
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Comment: C: Is there any suitable annotation tool for structural rearrangements?
... I suggest using AnnotSV for SV annotation (with OMIM, DGV, 1000g, haploinsufficiency, TAD, ... and also with your own in-house information) You can look at this post describing the annotSV tool: https://www.biostars.org/p/196944/ ...
written 8 months ago by LGMgeo90
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Comment: C: How Can I Annotate Cnvs
... I suggest using AnnotSV for CNV annotation (with OMIM, DGV, 1000g, haploinsufficiency, TAD, ... and also with your own in-house information) . You can look at this post describing the annotSV tool: https://www.biostars.org/p/196944/ ...
written 8 months ago by LGMgeo90
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Comment: C: How to handle SV annotation of big DEL or DUP?
... I suggest using AnnotSV for annotation (with OMIM, DGV, 1000g, haploinsufficiency, TAD, ... and also with your own in-house information) You can look at this post describing the annotSV tool: https://www.biostars.org/p/196944/ ...
written 8 months ago by LGMgeo90
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Answer: A: 1000Genome SV integrated map's power for SV filter
... I suggest using AnnotSV for annotation (with OMIM, DGV, 1000g, haploinsufficiency, TAD, ... and also with your own in-house information) You can look at this post describing the annotSV tool: https://www.biostars.org/p/196944/ ...
written 8 months ago by LGMgeo90

Latest awards to LGMgeo

Commentator 8 months ago, created a comment with at least 3 up-votes. For C: Annotation for SV and CNV
Popular Question 12 months ago, created a question with more than 1,000 views. For TAD (Topologically Associating Domain) boundaries
Student 17 months ago, asked a question with at least 3 up-votes. For TAD (Topologically Associating Domain) boundaries

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