User: Mostafa
Mostafa • 20
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Posts by Mostafa
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C: k mer analysis
... our coverage is almost good, but the genome is highly repetitive and we are aware that more coverage could be helpful. However, the result is much weaker than you would think about the coverage. ...
written 22 months ago by
Mostafa • 20
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C: k mer analysis
... Thanks. Actually, we have not observed expected results on from Supernova and are exploring for the reasons in analytical step. ...
written 22 months ago by
Mostafa • 20
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... Hi everyone!
I am wondering to do a k mer analysis on my input 10X reads lib which has been pre processed by longranger basic.
It aims to find the best k value for my assembly.
I thought that KAT can help me. but it seems that it does not apply the different k values
does anyone know the proper ...
written 22 months ago by
Mostafa • 20
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... Hi
We are looking for a 10X data library related to an AT-rich genome in order to test our denovo genome assembler. Does anyone know any published library? or even have any information about AT-rich genomes?
Thanks ...
written 24 months ago by
Mostafa • 20
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... I'm sorry for the delay in my response. If it works for you please contact me on Shahhosseini.94@gmail.com in order to discuss your questions. ...
written 24 months ago by
Mostafa • 20
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... I have a large number of read libraries, doing denovo assembly by minia. The minia generates some files. Does any body know that how is it possible to use the generated file in order to make scaffolds by a scaffolder? any same experience? ...
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... it's a good approach which we are following in parallel by using abyss assembler for assembling the whole data, 10X added to them. but using gap fillers can be useful in any case. am I right? ...
written 2.2 years ago by
Mostafa • 20
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... We have a draft genome which its size is about 1.52Gb. its generated from some libraries of paired-end and mate pair reads. Actually, its assembled from 3 paired-end and 3 mate pair library with a coverage between 16x and 70x.
in addition to the data which are assembled to our draft genome, we have ...
written 2.2 years ago by
Mostafa • 20
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... Does anyone have useful experience or know some paper in comparing different gap fillers like Sealer, FGAP, GapCloser (part of SOAPdenovo), and etc?
thanks ...
written 2.2 years ago by
Mostafa • 20
• updated
2.2 years ago by
k.kathirvel93 • 260
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... We are trying to enhance a present draft genome of an species of Planaria. The size of the present draft genome is about 1.52Gbp.
We used [Arcs][1] to enhance our draft genome, the result is almost good but only the scaffolds are augmented and the total size of the draft genome is not changed.
It wa ...
written 2.2 years ago by
Mostafa • 20
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