User: maheshhbg

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maheshhbg20
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India
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5 years, 3 months ago
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5 years, 7 months ago
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Posts by maheshhbg

<prev • 4 results • page 1 of 1 • next >
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Answer: A: What should I give for average insert size in config file of SOAP scaffolder..
... Hi You can prepare single config file by inputting paired end reads ( used for obtaining the contigs), mate-pairs of 3k and 8k and SOAPDenovo2.  You should mention the following flags in config file to decide when (rank) and for what ((asm_flags) the reads should be used . In your case you should ...
written 5.6 years ago by maheshhbg20
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Answer: A: Determining the accuracy of a "merged" genome assembly
... You can run QUAST (Quality Assessment Tool for Genome Assemblies) tool against merged assembly with individual assemblies. It is very simple to operate and here is the link. http://bioinf.spbau.ru/quast Let me know, if you need further clarification on this. Good luck ! ...
written 5.6 years ago by maheshhbg20
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How to represent transposons on a chromosome?
... Hi Friends, I am working rice and want to show distribution of transposable elements (Tos17, LINEs,SINEs etc) on chromosome1. My idea is to show them in graphical mode (like markers on linkage map). Please let me know, how I can do this? Thanks ! ...
genome assembly written 5.6 years ago by maheshhbg20 • updated 5.6 years ago by george.ry1.1k
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Answer: A: how to assemble scaffolds to chromosome??
... Hi You can use a tool called [ABACAS][1] for this purpose. typical usage would be: perl abacas.1.3.1.pl -r reference_genome.fa -q contigs.fa -p nucmer -N -m -b thank you! [1]: http://abacas.sourceforge.net/Manual.html ...
written 5.6 years ago by maheshhbg20 • updated 8 months ago by RamRS27k

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