hi all , what is the approximate total number of contigs we should get in a velvet assembly? I would like to know this because i did assemblies with various parameters but i always get more then million contigs..
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Use VelvetOptimizer.pl
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In a genomic assembly you should get exactly the number of chromosomes for that species or you've made a horrible mistake.
Seriously, i think you are beginning to shoot from the hip with your questions to this board. Post some more specifics or do some research on your own.Comment
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What are you trying to assemble?
Here are some numbers from CLCbio tool: http://www.clcbio.com/index.php?id=1413
Lesser, longer contigs are better, provided they are not incorrect!--
bioinfosmComment
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re
hello zingster ..iam very new to this kind of research and iam not expertise like you in bioinfo ....so only i have these kind of questions araises..im sry if iam hard..Comment
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This thread reminds me of something...thanks...(will post the idea in the Site Feedback forum shortly...)Comment
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Searching in the dark
Yes, it's better we know the exact chr number. But not all the organisms we know their chromosome. A good way is to align to a closely related organism and then to check the left contigs.
Originally posted by Zigster View PostComment
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