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Forum: Bioinformatics 03-29-2015, 05:18 AM
Replies: 0
Views: 893
Posted By hylei
patterns of genetic diversity in populations from the genomic sequences

Dear all:

Can anyone give me some suggestions how to study the genetic diversity in populations from the genomic sequences? which tools I can use?

In my current project, I have around 1000 70kb...
Forum: General 03-25-2015, 12:12 PM
Replies: 0
Views: 1,187
Posted By hylei
how to calculate the sequence pattern from the alignment result?

Hi,

Can anyone recommed me the tools to find how many sequences pattern in the dataset? here is part of sequence alignment result. 1-16 sequences are similar to the reference, but not exactly...
Forum: General 11-26-2014, 04:48 AM
Replies: 5
Views: 1,446
Posted By hylei
We want to find the bacteria sequence. Can you...

We want to find the bacteria sequence. Can you give me some idea the easy way to search the 1000 Genome project? Thanks.

HY
Forum: General 11-25-2014, 05:20 PM
Replies: 5
Views: 1,446
Posted By hylei
Thanks very much for your reply. I really want to...

Thanks very much for your reply. I really want to find some target sequence in the non-human sequence in the 1000 Genome project. Can you please give me some idea how I can do it? Thanks.

HY
Forum: General 11-25-2014, 04:02 PM
Replies: 5
Views: 1,446
Posted By hylei
How to align the sequence with the 1000 Genome project?

Dear all:

I want to see whether I can find the target sequence in the 1000 genome project, especially in the non-human sequence. Does it any easy way that i can search the database just like...
Forum: Bioinformatics 12-05-2013, 08:26 AM
Replies: 17
Views: 27,252
Posted By hylei
Thanks. Because i need to use the Megan to...

Thanks. Because i need to use the Megan to display the file, my output is not the table format. I use the -m 0 output parameter. Do you know any parameter settiing can direct just get the top kit...
Forum: Bioinformatics 12-05-2013, 07:54 AM
Replies: 17
Views: 27,252
Posted By hylei
Thanks for the great information. But i still...

Thanks for the great information. But i still have the question about the top hit. I am running the blastn using the high throughout computer. I just can choose the parameter from...
Forum: Bioinformatics 07-09-2012, 07:07 AM
Replies: 17
Views: 7,783
Posted By hylei
How to close the CLC-bio contigs according to the reference genome sequence?

Hi, I used the CLC-bio de novo assembly to analyze the Miseq 150bp PE data, and I have the 150 contigs. I also have the 170kb reference genome seq; I tried to use the IMAGE to close the gap, and it...
Forum: Introductions 04-16-2012, 10:09 AM
Replies: 373
Views: 116,673
Posted By hylei
Hi, My name is Haiyan, a fellow in FDA. We...

Hi,

My name is Haiyan, a fellow in FDA. We try to identify the new pathogen from the human samples. We will use the Illumina miseq platform. Thanks.

haiyan
Forum: Bioinformatics 04-16-2012, 09:50 AM
Replies: 3
Views: 2,190
Posted By hylei
i tried to de novo assembly the miseq PE 2X150...

i tried to de novo assembly the miseq PE 2X150 seq. Can anyone please suggest which assembler is better? Thanks.
Forum: Bioinformatics 03-18-2011, 07:36 AM
Replies: 0
Views: 1,128
Posted By hylei
c.elegans genome alignment recommended settings for BFAST

Hi,

I am new to the NGS analysis. I am trying to use the BFAST to find the snp in C.elegans genome for the Illumina data reads. Can anyone recommend the index setting choices? Thank you very much.
Forum: Illumina/Solexa 12-10-2010, 12:11 PM
Replies: 7
Views: 4,367
Posted By hylei
Smile ask suggestions for new users

:)Hi, All:

I am totally new to the NGS data analysis. I want to get more idea about how to begin with the NGS, and where to get the practice data? Thanks.

hylei
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