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Forum: Metagenomics 12-27-2013, 06:40 AM
Replies: 8
Views: 15,472
Posted By fanyucai1
qiime could not cope with pair-end datas,but if...

qiime could not cope with pair-end datas,but if you use miseq platform ,maybe there is a overlap between pair-end data. so you can assembly the data ,then use the qiime.
Forum: Metagenomics 12-27-2013, 06:34 AM
Replies: 1
Views: 1,392
Posted By fanyucai1
how to get gene abundance

hi,everyone, i have some metagenomics data. I have predicted genes from contig. Are there some softwares or method to get gene abundance?
thanks!!!
Forum: Metagenomics 10-27-2012, 07:19 PM
Replies: 7
Views: 3,815
Posted By fanyucai1
There is a software named MEGAN...

There is a software named MEGAN (http://ab.inf.uni-tuebingen.de/software/megan/)
,you could use. The reference database you could choose SILVA\Greengene\RDP
Forum: Metagenomics 03-30-2012, 06:59 PM
Replies: 7
Views: 3,749
Posted By fanyucai1
Thank you for reply. I will try it.

Thank you for reply. I will try it.
Forum: Metagenomics 03-29-2012, 06:42 AM
Replies: 7
Views: 3,749
Posted By fanyucai1
Thank you for your reply. I want to know whether...

Thank you for your reply. I want to know whether some papers about Metagenomics on the basic of Solid sequencing.
Forum: Metagenomics 03-29-2012, 03:36 AM
Replies: 7
Views: 3,749
Posted By fanyucai1
SOlid &&&& Metagenomics

Are there some research to Metagenomics using Solid???? Otherwise, the short read (about 50bp)to apply thie field????
Forum: SOLiD 03-29-2012, 03:29 AM
Replies: 9
Views: 3,382
Posted By fanyucai1
This script could not output the .qual file...

This script could not output the .qual file after quality-contorl ,you could choose it from raw file according csfasta file .
Forum: Metagenomics 05-18-2011, 08:08 PM
Replies: 4
Views: 2,923
Posted By fanyucai1
MEGAN is a versatile tool for analyzing taxonomic...

MEGAN is a versatile tool for analyzing taxonomic and functional content of metagenomes. It allows comparative analyses of different datasets.
Forum: SOLiD 05-02-2011, 08:59 PM
Replies: 9
Views: 3,382
Posted By fanyucai1
there is a paper called :Analysis of quality raw...

there is a paper called :Analysis of quality raw data of second generation sequencers with Quality Assessment Software. you can find it by google. it is very simple ,it wil help you .
some...
Forum: SOLiD 04-27-2011, 06:23 PM
Replies: 9
Views: 3,382
Posted By fanyucai1
solid not supply the parameters, choose them by...

solid not supply the parameters, choose them by yourself, i advice you can statistics raw data before using last script.
Forum: SOLiD 04-26-2011, 09:08 PM
Replies: 9
Views: 3,382
Posted By fanyucai1
csfasta_quality_filter.pl this script will be...

csfasta_quality_filter.pl this script will be used about qulity contorl in solid.
you can find this script by google
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