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What R packages and other tools are designed for .gb whole genome files sequence processing: multiple alignment and SNP calling, generating reports?

What R packages and Windows software or web tools are designed for the .gb whole genome files sequence processing: multiple alignment and SNP calling, generating reports?

I want to run experiments on WGS MDR tuberculosis data from databases and the local. Please advise best software suits and R packages, most robust for data processing and building nice reports with charts and tables. If you know good book chapters and articles, tell me.

I tried Lasergene, SeqSphere, JMP, need more tools. I am new to WGS data processing. I had experience only with microarrays.

Thank you

snp tuber r wgs
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updated by Ram Ram • written by fashiondesignrussian • fashiondesignrussian

I just read through your post history and noticed that while you seem to have no want for tools, you are lost when it comes to the approach to solving problems. Maybe check your approach/methods first? Ask around if what you're trying to do makes sense to others.

From your vaguely phrased questions, it looks like you're looking for a comprehensive software package for your tasks. Bioinformatics uses various tools for small sub-tasks, and understanding that might help you break down your problem and deal with it appropriately instead of looking for a whole-nine-yards kind of solution.

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written by Ram Ram

I need a concrete list of the appropriate software, a hamster and donkey understands that there are many useless tools, thanks, Folks

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written by fashiondesignrussian • fashiondesignrussian

Hello fashiondesignrussian!

We believe that this post does not fit the main topic of this site.

Please have a clear (See: SMART) objective in mind when you set out to solve a problem. Generic lists of software products will get you nowhere and creating these lists is a waste of time for us.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.

Cheers!

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written by Ram Ram

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