User: manjumoorthy95

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Posts by manjumoorthy95

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Comment: C: Genotype phased and unphased
... Can you explain to me what is meant by 0/0, 1/1, 0|0 and 1|1? Iam totally confused. ...
written 1 day ago by manjumoorthy950
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Comment: C: Genotype phased and unphased
... What does, 0/0 mean? Does that mean the reference allele has not changed? ...
written 1 day ago by manjumoorthy950
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Snpeff for predicting snp effect
... I was using Snpeff for predicting the effect of the snps found in bacterial genomes. there are actually 967 snps annotated by the snpeff, as seen from the annotated vcf file in the output. But in the summary html file generated, it's seen that the total number of snps are 969. How can this happen? ...
snpeff snp written 1 day ago by manjumoorthy950
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Comment: C: Genotype phased and unphased
... OK, Thank you so much ...
written 1 day ago by manjumoorthy950
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Comment: C: Genotype phased and unphased
... So does that mean 0|1, means that the allele is changed to a new one, while 0/1 means, the allele is not changed? ...
written 2 days ago by manjumoorthy950
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Genotype phased and unphased
... Can anybody tell help me explain the difference between 0/1 and 0|1 genotype when, we do snp analysis. I read that it shows the difference in phasing of the genotype, with 0/1 not phased and 0|1 phased. But what does it mean to be phased and unphased? ...
vcf phasing genotype snp written 3 days ago by manjumoorthy950 • updated 3 days ago by Pierre Lindenbaum119k
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Comment: C: How to give merged reads as input in spades
... Thank you, but still I am confused. Actually, I am working with the tool , BBsplit. I want to split the reads I have according to the reference genome to which it maps. So, after i run bbsplit, if we used paired end reads, the tool gives an output in such a way that, the paired end reads that map to ...
written 12 weeks ago by manjumoorthy950
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Comment: C: How to give merged reads as input in spades
... Ok Thank you sir. Will check ...
written 3 months ago by manjumoorthy950
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Comment: C: How to give merged reads as input in spades
... So after giving " --merged name_of_merged_file" , can I give my rest of the separate paired reads which is not merged as," -1 read1.fq -2 read2.fq " ...
written 3 months ago by manjumoorthy950
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How to give merged reads as input in spades
... I have the merged paired end reads and the rest of the separate paired end reads in two different files. How can I give this as input to Spades for assembling? ...
merged assembly spades de novo written 3 months ago by manjumoorthy950 • updated 3 months ago by Joseph Hughes2.7k

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