User: aditigrawal

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Posts by aditigrawal

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Comment: C: Error while running SNPEff
... Hi, Thank you for your reply. I did try increasing the stack size. It did not work. Apparently, the problem is with GTF file, I did try with other GFF file and it is running successfully. I checked my GTF file, it looks ok to me, can you suggest something in the regards. Thanks ...
written 12 weeks ago by aditigrawal0
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Error while running SNPEff
... Hi all, I am trying to build database from GTF file, I created from de novo assembled transcriptome using trinity. I am using following command : java -jar snpEff.jar build -gtf22 -v PBW and getting this error: Picked up _JAVA_OPTIONS: -Xmx1g 00:00:00 SnpEff version SnpEff 4.3 ...
snp written 12 weeks ago by aditigrawal0 • updated 12 weeks ago by jrj.healey12k
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How to fetch assembled sequences of different libraries from BAM
... Hi All, I have 4 RNA-seq libraries ( control and treated in replicates). I merge them together to assemble them. Now, after assembly, I have got only single fasta file. How can I fetch sequences of individual libraries. Thanks Aditi Agrawal ...
rna-seq written 10 months ago by aditigrawal0

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