User: urmi208

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urmi20830
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1 year, 1 month ago
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3 years, 7 months ago
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Posts by urmi208

<prev • 14 results • page 1 of 2 • next >
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Comment: C: MAKER annotation gives weird results
... I am facing similar problem. How did you solve yours? I would be grateful if you could share the solution. Thanks. ...
written 21 months ago by urmi20830
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Gene loss in subsequent round of maker for fungal genome annotation
... Hello, I am trying to run maker2.31.9 on a fungal genome. I have got transcript and protein sequences from a related species using parameters "altest" and "protein" in the maker_opts.ctl file. Here is the protocol I am using: 1. Run maker with repeat masking and providing transcript and protein se ...
annotation genome assembly maker written 21 months ago by urmi20830
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Comment: C: Different results with edgeR when adding gene symbols
... Thank you Mma. It makes sense. I will give this a go. ...
written 2.6 years ago by urmi20830
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Comment: C: Different results with edgeR when adding gene symbols
... Thanks Santosh. Very helpful ...
written 2.6 years ago by urmi20830
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Comment: C: Different results with edgeR when adding gene symbols
... Aha! There is merging issue. Any ideas how can I fix this? ...
written 2.6 years ago by urmi20830
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Comment: C: Different results with edgeR when adding gene symbols
... Before adding gene names: ensembl_gene_id logFC logCPM PValue FDR ENSGACG00000007157 3.24915717386252 1.07342942182991 0.000618728695167078 1 ENSGACG00000013912 2.3468671394398 0.373720501233804 0.0113007333301586 1 ENSGACG00000001321 2.21861945153189 0.972005925991169 0.01313771363 ...
written 2.6 years ago by urmi20830
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Comment: C: Different results with edgeR when adding gene symbols
... Thanks for your reply. I have 22460 rows both before and after adding the gene names ...
written 2.6 years ago by urmi20830
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Different results with edgeR when adding gene symbols
... Hello, I am trying to get the gene names along with the Ensembl gene ids in the final edgeR output. The problem is: I am seeing different results when I add the gene symbols and when I don't. Here is example code without gene symbols library(edgeR) exp2 <-read.table('exp2',header=TRUE) ...
biomart rna-seq edger written 2.6 years ago by urmi20830 • updated 2.6 years ago by MMa280
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Comment: C: insert size discrepencies using bwa backtrack and bwa mem
... Thank you for the explanation, Heng. I have already trimmed the adapters but may be there are still some traces left in there. I will have a look. ...
written 3.5 years ago by urmi20830
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Comment: C: insert size discrepencies using bwa backtrack and bwa mem
... Sure. I will give that a go and let you know what I get. ...
written 3.5 years ago by urmi20830

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Popular Question 14 months ago, created a question with more than 1,000 views. For Different results with edgeR when adding gene symbols
Popular Question 20 months ago, created a question with more than 1,000 views. For insert size discrepencies using bwa backtrack and bwa mem

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