Forum: Bioinformatics
07-12-2012, 10:08 PM
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Replies: 4
Views: 2,052
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Forum: Bioinformatics
07-12-2012, 08:11 PM
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Replies: 4
Views: 2,052
Deleterious information in dbSNP
Hello everyone,
How could I obtain the SNPs which are deleterious in the dbSNP?
Is the recent versions of dbSNP containing the deleterious information if the SNP sites is deleterious?
Thanks...
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Forum: Bioinformatics
04-10-2011, 06:59 PM
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Replies: 4
Views: 3,115
It seems that some problems exist in your gdb...
It seems that some problems exist in your gdb from the warning message "shared library handler failed to enable breakpoint". I am sorry I didn't encounte this kind of error message before and cannot...
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Forum: Bioinformatics
04-08-2011, 07:14 PM
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Replies: 4
Views: 3,115
We once run into this error, when we run the...
We once run into this error, when we run the Soap2.2. We used gdb to debug the error, and we found it is the libstd++.so library which was not compatible with the Soap2.20 executable program. I just...
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Forum: Bioinformatics
01-30-2011, 10:41 PM
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Replies: 2
Views: 3,218
Find SNP in Sanger sequenced gene
Hi guys,
I have about 120 sequences of the same genes from our sample, which are sequenced by Sanger methods, How can I get the SNP sites among this gene compared to the reference gene? Is there...
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Forum: Bioinformatics
12-09-2010, 11:24 PM
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Replies: 0
Views: 1,827
building unigene form contigs
Hi guys,
Can someone give me any suggestions how to get the unigene from the contigs assemblied form the RNA-Seq short reads?
Thanks!:)
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Forum: Bioinformatics
09-18-2010, 02:25 AM
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Replies: 5
Views: 9,573
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Forum: Bioinformatics
09-18-2010, 01:51 AM
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Replies: 5
Views: 9,573
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Forum: Bioinformatics
09-16-2010, 07:21 AM
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Replies: 5
Views: 9,573
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Forum: Bioinformatics
09-10-2010, 01:08 AM
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Replies: 2
Views: 4,127
Using reference sequence in Velvet
hello all,
We have sequenced one kind of strain of a microorganism and get the pair-end short reads data. Then we want to use Velvet to assembly the genome sequence and use the genome sequence...
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Forum: Bioinformatics
08-08-2010, 01:14 AM
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Replies: 3
Views: 3,682
Thanks for your kindly reply.
This may be the...
Thanks for your kindly reply.
This may be the default setting of "bwa aln", however, when i use 'bwa samse' to convert the result.sai ,generated by 'bwa aln', to sam format, the read in the sam...
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Forum: Bioinformatics
08-07-2010, 09:59 PM
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Replies: 3
Views: 3,682
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Forum: Bioinformatics
08-03-2010, 10:59 PM
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Replies: 4
Views: 2,346
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Forum: Bioinformatics
08-03-2010, 06:12 PM
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Replies: 4
Views: 2,346
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Forum: Bioinformatics
08-01-2010, 01:36 AM
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Replies: 4
Views: 2,346
Mismatch setting in BWA
Helllo everyone,
I am still comfused how to set the maximum mismatch to 2 when I use "bwa aln", given 75bp reads.
bwa aln -n 2
or
bwa -l 75 -k 2
Any suggestions will be highly...
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Forum: Bioinformatics
07-30-2010, 08:11 AM
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Replies: 11
Views: 22,108
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Forum: Bioinformatics
07-28-2010, 07:12 PM
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Replies: 11
Views: 22,108
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Forum: Bioinformatics
07-26-2010, 05:03 AM
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Replies: 11
Views: 22,108
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Forum: Bioinformatics
07-25-2010, 06:43 PM
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Replies: 11
Views: 22,108
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Forum: Bioinformatics
07-25-2010, 08:50 AM
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Replies: 11
Views: 22,108
Merge sam/bam file
Hello all,
I have pair-end reads (1.fq and 2.fq ) data and mapped them with 'bwa aln', I don't want to generate alignments in the SAM format in paired-end way with 'bwa sampe', but generate sam...
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Forum: Bioinformatics
07-20-2010, 07:27 AM
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Replies: 1
Views: 1,471
Can maq support multiple threads？
Hi everyone,
can maq support mutiple threads (processors)? just like the "-t INT number of threads [1]" parameter in bwa or "-p/--threads <int> number of alignment threads to launch...
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Forum: Bioinformatics
07-17-2010, 12:54 AM
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Replies: 14
Views: 8,066
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Forum: Bioinformatics
07-13-2010, 11:55 PM
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Replies: 14
Views: 8,066
How can i set the "mismatch" parameter in bwa
Hello everyone
I want to set the number of mismatch not large than 2, when I map my short reads (75bp) to reference genome sequence with bwa, how should i set in "bwa aln".
thanks!
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Forum: Bioinformatics
07-08-2010, 05:06 AM
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Replies: 3
Views: 1,995
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Forum: Bioinformatics
07-03-2010, 12:13 AM
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Replies: 2
Views: 2,840
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