User: ben.blais

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ben.blais0
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Posts by ben.blais

<prev • 8 results • page 1 of 1 • next >
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Comment: A: Compare two sequences and obtain differences
... Hi and thanks you :) , when I use MUMmer I get a delta file but I do not know what to do with it. I would like to get the list of the differences between the sequence and the reference as a variant call (Position, base reference, alternative base). Is it possible with MUMmer? ...
written 20 days ago by ben.blais0
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Comment: A: Compare two sequences and obtain differences
... Hello, thanks for your answers. I wanted to use MUMmer, but I can not get the differences between the sequences. One of the sequences is my reference, the other is a sequence obtained after assembly (Sequence b). I would like to be able to align the sequence B on the reference sequence in order to ...
written 20 days ago by ben.blais0
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Compare two sequences and obtain differences
... Hello everyone, I would like to know if it is possible to align two sequences of 38 000 000 bases between them and to obtain a file corresponding to the differences between these two strains. I can visually see these results with IGV but I can not get the differences. Thank you and wish you a great ...
genome assembly alignment written 21 days ago by ben.blais0
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Modify Scaffolds to create a New reference
... Hello everyone, I would like to ask you about a current problem which I face. Indeed, I got scaffolds from contigs. Then, I used Blat to compare these scaffolds to a near reference, and then visualize this alignment with IGV. When viewing, I can see that there are small gaps when aligning the scaff ...
genome assembly written 6 weeks ago by ben.blais0 • updated 29 days ago by Biostar ♦♦ 20
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Comment: A: Comparing contigs files and recover similar contigs
... Hi, thanks you, my contigs measured between 500 and 200 000 bases. Thanks you for your help ...
written 11 weeks ago by ben.blais0
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Comparing contigs files and recover similar contigs
... Hi, I need help with a problem. I got two files containing contigs from two different assemblers. I would like to know if it is possible to compare the contigs of go out to keep only those that are similar to 95%. I was thinking of using a BLAST, aligning the contigs of the first file on the scond ...
genome sequence written 11 weeks ago by ben.blais0 • updated 11 weeks ago by h.mon27k
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Comment: A: Assembly contigs into scaffolds with AMOS
... Hi, thanks you for your help, i will go see it. ...
written 11 weeks ago by ben.blais0
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Assembly contigs into scaffolds with AMOS
... Hello, I have a little problem. Indeed, I would like to assemble contigs into scaffolds. I have Two files containing contigs of interest (in fasta format) obtained after de novo assembly and I would like to do a scaffolding. I wanted to use the AMOScmp tool based on a reference to the .fasta form ...
genome assembly written 3 months ago by ben.blais0

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