User: popayekid55

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popayekid5550
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Posts by popayekid55

<prev • 48 results • page 1 of 5 • next >
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Answer: C: How to download all premRNA sequences (exons + introns) for human GRCh38 with En
... download all the unspliced transcripts from ensembl biomart then mask using [bedtools maskfasta][1] [1]: https://bedtools.readthedocs.io/en/latest/content/tools/maskfasta.html ...
written 8 months ago by popayekid5550
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Comment: C: Extracting the full read ID when converting from BAM -> FASTQ
... all the aligner uses header till first space. if you want the full header you need to replace the space with something else. ...
written 8 months ago by popayekid5550
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Answer: C: miRNA-seq DE analysis with duplicate replicates. Am i correct?
... replicates are used to calculate the significance of DE, duplicating the sample to generate replicates would not help. If you want to calculate DE, use DESeq1 which works without replicates ...
written 8 months ago by popayekid5550
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cnvScan indbcount cutoff
... hi all, i am using cnvScan to annotate cnv results from multiple files. after the annotation, result file has indbcount which tell in how many sample same/similar cnv was present i am trying to understand the cutoff used to tag them as common among multiple samples. could not find it in paper. pl ...
cutoff tool cnv written 8 months ago by popayekid5550
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Comment: C: common CNVs among multiple files
... i did not understand completely. I am looking for common (overlapping) cnv coordinates among these 35 files. ...
written 8 months ago by popayekid5550
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Comment: C: common CNVs among multiple files
... output will be converted into bed file format like below 1 629471 638210 1 0.431094 1 671461 675070 3 2.75301 1 1414076 1416640 1 0.560963 1 2583526 2591885 3 12.4121 1 2634161 2684320 1 0.000940585 chromosome start and end of cnv, type of cnv and a score ...
written 8 months ago by popayekid5550
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common CNVs among multiple files
... Hi all, i have analyzed 35 normal WGS sample for cnvs using cnvNator. Now i want to know common cnv region among these files so that those can be used as control panel. Is the a tool or method to obtain these common region among all files at once? thank you ...
genome cnv written 8 months ago by popayekid5550 • updated 8 months ago by Kevin Blighe46k
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Comment: C: Busco result interpretation
... Any other approach you opted to address the concern?? ...
written 17 months ago by popayekid5550
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Busco result interpretation
... Dear all, I have assembled a algal genome n predicted ~9k genes using Augustus. Genes were evaluated using Busco. Only 132 genes were put under different category of Busco (C,S,D,F and M). When I checked for *C reinhardtii*, around 300 genes were put under those categories. But in article they are ...
genome gene tool written 17 months ago by popayekid5550 • updated 17 months ago by charles.bridges70
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Comment: C: MSA of very long sequences?
... you could try using [mafft][1] [1]: https://mafft.cbrc.jp/alignment/software/ ...
written 18 months ago by popayekid5550

Latest awards to popayekid55

Popular Question 17 months ago, created a question with more than 1,000 views. For best kmer for genome size estimation
Popular Question 17 months ago, created a question with more than 1,000 views. For RNASeq gender identification
Popular Question 17 months ago, created a question with more than 1,000 views. For feature count strand explained
Supporter 3.0 years ago, voted at least 25 times.

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