User: bruseq

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bruseq40
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5 days, 4 hours ago
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3 years, 4 months ago
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Posts by bruseq

<prev • 23 results • page 1 of 3 • next >
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Remove contamination before assembly
... Hello everyone, I am trying to draft a fungal genome, but the raw sequence R1 and R2 contain contamination, so before doing assembly I mapped Raw reads using bowtie2 against refseq Bacterial db and mitochondrial db, then exact unmapped reads using samtools {the unmapped reads are contamination free ...
genome assembly draft genome written 19 months ago by bruseq40 • updated 19 months ago by h.mon29k
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Answer: A: Masurca assembly denovo
... Thank you for the reply dear ones, I solved this error. ...
written 19 months ago by bruseq40
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Masurca assembly denovo
... Hello everyone I am try assemble a denovo genome using MaSuRCA assembler. but it generate an error: ***Assembly stopped or failed, see CA.log*** Please guide me how to solve this error. Thanks, Divya ...
genome assembly denovo written 19 months ago by bruseq40
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Comment: C: How to deal with MSTRG tag without relevant gene name?
... Hello everyone, I also have above same problem i.e; ( in my case Cuffdiff gives gene ID but there specific gene names are missing) I used reference.gtf file during every steps. I also try to get specific gene name using there chr. locus number but no result found, did blast also. No any information ...
written 2.1 years ago by bruseq40
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Popoolationte Samro.pl error
... Hello everyone, I am using Popoolationte tool. While using tool an error message occur i.e; " sam is not empty in the end at samro.pl line 114, <$fh> line 113468176." while using Samro.pl script for paired-end of Popoolationte. Both the given input sam files are equal in size. I am not get ...
popoolationte samformat written 2.8 years ago by bruseq40
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Comment: C: Samtools mpileup degenerative characters
... Thanks for the comment @ Saumel That I know the -1 are the indels but I didn't get why these "y" and "s" characters also encounter with -1 in the mpileup file. ...
written 2.9 years ago by bruseq40
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Comment: C: Samtools mpileup degenerative characters
... Hello sir, Now I installed samtools version-1.5 but the problem is persist in the mpileup file. Any suggestion. ...
written 2.9 years ago by bruseq40
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Comment: A: Samtools mpileup degenerative characters
... Thanks for your reply, I m using samtools version `0.1.19-96b5f2294a` Here below I m posting the command samtools mpileup -f ref_genome.fa input.bam > output.mpileup Error lines 2 3616324 A 211 .,,.,..,-1y...,..,,..............,,,,,,......,,,...,,,....,,,....,,,,,,,.....,,..,....... ...
written 2.9 years ago by bruseq40 • updated 2.9 years ago by Istvan Albert ♦♦ 83k
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Samtools mpileup degenerative characters
... Hello everyone, I am using samtools to get mpileup file. but there is an degenerative characters "-1y, -1Y, -1s" etc. also shown in the mpileup file. I want to know why these degenerative characters are shown in mpileup file. Please help me to sort the above problem. Thanks, Divya ...
samtools degenrative characters mpileup written 2.9 years ago by bruseq40 • updated 22 months ago by swbarnes27.7k
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Comment: C: Popoolation variance-sliding.pl output shows only zero value
... Please anyone guide me how to solve this error. ...
written 2.9 years ago by bruseq40

Latest awards to bruseq

Popular Question 8 months ago, created a question with more than 1,000 views. For Samtools mpileup degenerative characters
Popular Question 8 months ago, created a question with more than 1,000 views. For Abyss-pe de-novo assembler error
Popular Question 10 months ago, created a question with more than 1,000 views. For extract SNP, variants
Popular Question 11 months ago, created a question with more than 1,000 views. For extract SNP, variants
Great Question 17 months ago, created a question with more than 5,000 views. For R unused arguments
Popular Question 17 months ago, created a question with more than 1,000 views. For extract SNP, variants
Popular Question 18 months ago, created a question with more than 1,000 views. For extract SNP, variants
Popular Question 18 months ago, created a question with more than 1,000 views. For STRUCTURE software file format
Popular Question 2.1 years ago, created a question with more than 1,000 views. For extract SNP, variants
Popular Question 2.6 years ago, created a question with more than 1,000 views. For R unused arguments

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