User: manojkumarbioinfo

Reputation:
60
Status:
New User
Location:
India
Last seen:
6 months, 3 weeks ago
Joined:
4 years, 11 months ago
Email:
m****************@gmail.com

Posts by manojkumarbioinfo

<prev • 32 results • page 1 of 4 • next >
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Answer: A: How to remove sequence reads contains more than 1 X from multifasta file?
... > awk -v RS='>' '!/XX/{printf $0RT}' test.fasta **Output** Prot1 ANSTVKKKKLLLYYYSSSEERXFGHYFGHYFGHFYVHFGFYVHCEDYHF Prot3 ANSTVKKKKLLLYYYSSSEERFGHYFGHYFGHFYVHFGFYVHCEDYHF ...
written 6 months ago by manojkumarbioinfo60
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Comment: C: Error, fewer reads in file specified with -2 than in file specified with -1
... I used BBmap repair.sh in1=r1.fq.gz in2=r2.fq.gz out1=fixed1.fq.gz out2=fixed2.fq.gz outsingle=singletons.fq.gz to fix this issue ...
written 12 months ago by manojkumarbioinfo60
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Comment: C: Error with Bowtie 2
... It worked fine thank you. the reads were not matching that's the problem ...
written 12 months ago by manojkumarbioinfo60
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Error, fewer reads in file specified with -2 than in file specified with -1
... Hai, I'm using bowtie2 as my aliner to align my sequence. I'm getting an error Fewer reads in the file specified with -2 than in file specified with -1. i used the same file to align with BWA-mem it does not show any error. but botie2 is still running for more than 1week with the same file size. t ...
wgs ngs sequencing bowtie2 written 12 months ago by manojkumarbioinfo60 • updated 12 months ago by h.mon31k
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Comment: C: Extracting Bar code From Fastq file
... I'm posting my Header file of my fastq. @M00196:24:000000000-AL55E:1:1101:14638:1425 1:N:0:4 TCTACCTACGGGTAGTCCAGATCGGAAGAGCACACGTGAACTCCAGTCACCTTGTAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAATGATATTCATTATATGTGACACGTCAATAGAAGCAATCAGCCAAGTGTCTGTAGCATGCTACTTTTTCTGTACAACAGACTTAATTTACTAAGCTATCCTATATGT ...
written 2.3 years ago by manojkumarbioinfo60 • updated 2.3 years ago by genomax92k
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Extracting Bar code From Fastq file
... Hai, I have a fastq file generated by Hiseq machine. i wish to extract the bar code of the sequence from the fastq files. ...
assembly next-gen sequencing written 2.3 years ago by manojkumarbioinfo60
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Comment: C: Error while aligning the sequence using Novoalign
... Thanks for your reply i sorted the problem with the read wile downloading the file using fastq-dump i set the quality as 30 that's why i faced the problem. ...
written 2.3 years ago by manojkumarbioinfo60
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Comment: C: Calculate the Quality of Bases
... sure i will look into it. ...
written 3.3 years ago by manojkumarbioinfo60
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Comment: C: Calculate the Quality of Bases
... ya that what i'm doing. but i want to know if there is any easier way than this. say if i have a 1000 variants like that we cant able to check them manually. ...
written 3.3 years ago by manojkumarbioinfo60
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Comment: C: Calculate the Quality of Bases
... i have used 5 different variant callers and merged every out put them i compared with my known ones, from that i missed about 86 variants which is not detected by any of my variant callers. so i wish to find whats the reason for missing those region. i checked with the depth, of those region it seem ...
written 3.3 years ago by manojkumarbioinfo60

Latest awards to manojkumarbioinfo

Scholar 6 months ago, created an answer that has been accepted. For A: Difference Between GATK, Freebayes and SAMtools mpileup
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: How to remove sequence reads contains more than 1 X from multifasta file?
Popular Question 10 months ago, created a question with more than 1,000 views. For Regarding Depth coverage
Popular Question 10 months ago, created a question with more than 1,000 views. For VCF - compare
Popular Question 2.2 years ago, created a question with more than 1,000 views. For VCF - compare
Popular Question 2.2 years ago, created a question with more than 1,000 views. For Regarding Depth coverage
Popular Question 2.2 years ago, created a question with more than 1,000 views. For Comparing VCF with dbsnp
Popular Question 2.2 years ago, created a question with more than 1,000 views. For VCF - compare
Popular Question 3.2 years ago, created a question with more than 1,000 views. For VCF - compare
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Comparing VCF with dbsnp
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Incompatible contigs No overlapping contigs found.
Popular Question 3.5 years ago, created a question with more than 1,000 views. For Incompatible contigs No overlapping contigs found.
Popular Question 3.5 years ago, created a question with more than 1,000 views. For Difference Between GATK, Freebayes and SAMtools mpileup
Scholar 4.7 years ago, created an answer that has been accepted. For A: Difference Between GATK, Freebayes and SAMtools mpileup

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