User: jean.christophe.grenier

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Posts by jean.christophe.grenier

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Comment: A: Switch the position of REF/ALT alleles based on AA (ancestral allele) annotation
... Thanks Pierre for these tools! I was looking for this kind of solution a while back ago. I have some problems though with the code. Here's what I'm getting : java -jar jvarkit/dist/vcffilterjs.jar -f vcfRefAlt_to_AncDer.js test.10000.vcf [INFO][Launcher]getting javascript manager Warnin ...
written 9 months ago by jean.christophe.grenier0
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Comment: C: How to download GTEx V7 raw RNA-seq data which is possibly deposited in gs.US s3
... Hello Claire, Some instructions would be really appreciated! We are also having some issues with almost half of the samples from GTex on the typical dbGAP system. Thanks a lot! ...
written 11 months ago by jean.christophe.grenier0
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Comment: A: How to download GTEx V7 raw RNA-seq data which is possibly deposited in gs.US s3
... Hello! I'm having the same issue here, and thus, loosing more than half of the samples. Were you able to solve this issue? Thanks! ...
written 12 months ago by jean.christophe.grenier0
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Answer: A: Where to find beadpool IDs for all (or most) Illumina Arrays
... Hello there, I don't know if you found what you were looking for, but a good resource that you can look at actually is this page http://www.well.ox.ac.uk/~wrayner/strand/index.html It's a method to convert those genotyping arrays in order to use them for imputation. You should have majority of th ...
written 3.1 years ago by jean.christophe.grenier0
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Comment: C: Ihs Score Calculation
... Cool, I'm pretty much interested to try your script, as the other one that I'm using presently (wiHS) is giving me some weird results when I'm comparing the results to the Haplotter browser results. Do you know as well if it's better to use relative Genetic positions instead of absolute ones? (i.e. ...
written 6.9 years ago by jean.christophe.grenier0

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