User: renjukrishna13

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Posts by renjukrishna13

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Answer: A: How to identify the contigs for each predicted cds sequences?
... I think BlastX would work better for this. ...
written 7 months ago by renjukrishna130
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Comment: C: Blast non-contiguous sequences on same protein
... Isn't this a motif finding problem ? Why do you need to use Blast for this ? Or am I missing some information ! ...
written 7 months ago by renjukrishna130
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Answer: A: clustering sequences in two different assemblies to find similarities based on s
... The other strategy I would recommed is to translate and get the peptides in all frames and do a protein level clustering. You could use latest tools like MMseq, https://github.com/soedinglab/MMseqs2 to do the clustering . ...
written 7 months ago by renjukrishna130
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Targeted resequencing analysis workflow
... Problem statement: I have to analyze a illumina paired end data for a 5kb genomic region from rice(japonica) and I am interested to detect the variations in a gene in my 5 different transgenic rice lines. I have one sample sequenced from each line . The sequencing was done using the Sbs-SeqCap meth ...
genome assembly next-gen variation written 2.3 years ago by renjukrishna130 • updated 19 months ago by ####140

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