User: b.lehri118

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b.lehri1180
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Posts by b.lehri118

<prev • 8 results • page 1 of 1 • next >
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optical map & assembly
... If you have an optical map of a bacterial genome and wanted to do an assembly (with unpaired reads) guided by an optical map how would you go about doing it. Does any one know of a software that is already made that may be able to do this??? any recomendation would be appreciated Thanks       ...
assembly sequence written 4.4 years ago by b.lehri1180 • updated 4.4 years ago by rtliu2.0k
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Comment: C: programme that can take an output from contiguator/ABACAS and design primers
... sorry i was not very attentive when i wrote the title/question . I basically want to know whether there are any programmes that can take an output from contiguator/ABACAS and design primers for my sequence. ABACAS/contiguator orientate and align contigs to a reference but they don’t seem to produc ...
written 5.0 years ago by b.lehri1180
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Comment: C: primer3 problem (trying to design primers for scaffold)
... thanks, i meant not a command line program ...
written 5.0 years ago by b.lehri1180
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programme that can take an output from contiguator/ABACAS and design primers
... Hi all, I have a scaffold-ed sequence (scaffold-ed using contiguator). I've tried ABACAS and contiguator to design primers neither seem to produce any primer output. Since both seem to be wrappers around primer3, I think the problem has to do with primer3. Could anyone suggest a way to design prime ...
primer primer3 abacas contiguator written 5.0 years ago by b.lehri1180 • updated 4.9 years ago by Biostar ♦♦ 20
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Method used for reducing contigs IonTorrant 400bp [unpaired] (critique/ways to improve would be appreciated)
... Hi All Just wanted people to critique on the method I used for reducing the number of contigs I had using the ion torrant 400 for a bacterial genome. Also if it’s good other people can use it as a guide. I had two 400bp run unpaired reads from ion torrent I De Novo assembled my reads using torr ...
assembly sequencing written 5.0 years ago by b.lehri1180 • updated 5.0 years ago by Rayan Chikhi1.4k
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Projector 2 For Contig Alignment To Reference And Primer Design
... Hi everyone, i found a tool called projector 2 to align contigs to a reference and was wondering if anyone uses this software and how it fares to contiguator, as i wish to now fill in gaps within my sequence using sanger. Which one in your opinion would be better, ...
alignment reference primer written 5.1 years ago by b.lehri1180
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Gap Filling Torrant Unpaired Reads Contigs Aligned Using Contiguator
... Hi everyone, Iv been looking for a software that would be able to reduce the number of gaps within my sequence. I have aligned and orientated my contigs using contiguator (using a reference), i have around 50 gaps. iv looked for softwares that could help in closing gaps within my pesudo sequences b ...
written 5.1 years ago by b.lehri1180 • updated 5.0 years ago by HG1.1k
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Plasmid Assembly Use Of Cisa Contig Intergrator
... Hi everyone Iv assembled a plasmid sequence and wanted to check whether I have done it correctly I first obtained read mapped contigs I secondly assembled contigs DE Novo using torrent assembler I then inputted these contigs onto CISA contig integrator, this resulted in a single contiguose seque ...
assembly quality sequence written 5.1 years ago by b.lehri1180

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