Forum: Bioinformatics
08-26-2013, 04:08 AM
|
|
Replies: 7
Views: 1,472
|
|
Forum: Bioinformatics
08-24-2013, 08:30 PM
|
|
Replies: 7
Views: 1,472
|
|
Forum: Bioinformatics
08-24-2013, 09:41 AM
|
|
Replies: 1
Views: 5,231
EST, microarray, RNAseq difference?
I want to know the difference of EST, microarray, RNAseq.
this is my conclusion;
through EST, we can know the sequence of transcripts from each cell type,
and from the result of EST, we can...
|
|
Forum: Bioinformatics
08-24-2013, 09:35 AM
|
|
Replies: 7
Views: 1,472
|
|
Forum: Bioinformatics
08-23-2013, 05:54 PM
|
|
Replies: 7
Views: 1,472
|
|
Forum: Bioinformatics
08-23-2013, 08:59 AM
|
|
Replies: 7
Views: 1,472
How can i get replication fork's position?
I want to know the position of replication fork of each chromosome.
ex)chr 1:bp10000, bp120000...
chr 2:bp 11000, bp 100000...
I searched about it from NCBI, UCSC but I could not get it....
|
|
Forum: Bioinformatics
08-21-2012, 10:56 PM
|
|
Replies: 10
Views: 2,481
and, if the paired-end read sequencing result...
and, if the paired-end read sequencing result anyway comes from 1 fragment with various length(for example, 150~500bp),
the aligned position of two read(1 forward read, 1 reverse read and they...
|
|
Forum: Bioinformatics
08-21-2012, 10:52 PM
|
|
Replies: 10
Views: 2,481
|
|
Forum: Bioinformatics
08-21-2012, 08:40 AM
|
|
Replies: 10
Views: 2,481
Thank you westerman!!!
Your second reply was...
Thank you westerman!!!
Your second reply was what i wanted to ask.
and, further question!
I understand that for reason of less error prone, illumina makes two(paired-end) fastq files.
but...
|
|
Forum: Bioinformatics
08-20-2012, 10:18 AM
|
|
Replies: 10
Views: 2,481
Yes, I use bwa aligner and how to use it.
...
Yes, I use bwa aligner and how to use it.
this post is about the 'concept' of paired-end read process.
I don't understand why they don't merge for/rev fastq and align them seperately.
|
|
Forum: Bioinformatics
08-20-2012, 12:19 AM
|
|
Replies: 10
Views: 2,481
paired-end mapping and SAM info.
Hi, I have an fundamental question...
as you know, paired-end fastq files(ex. 'asdf.for.fastq' and 'asdf.rev.fastq') can be aligned to 'asdf.sam'
As I know, aligner program aligns each forward...
|
|
Forum: Bioinformatics
08-14-2012, 07:36 PM
|
|
Replies: 7
Views: 2,262
because in my pipeline, i use ANNOVAR tool for...
because in my pipeline, i use ANNOVAR tool for annotation step and ANNOVAR gets input file with VCF format:(
I know I can change some column to make input file(vcf4.0 format) for ANNOVAR,
but I...
|
|
Forum: Bioinformatics
08-14-2012, 11:13 AM
|
|
Replies: 7
Views: 2,262
thank you
Thank you!!!!
I see it now because the alarm mail was in spam box...:(
another question!
is there any option of MuTect to get output with VCF format???
|
|
Forum: Bioinformatics
08-09-2012, 10:00 AM
|
|
Replies: 1
Views: 2,520
how can i interpret the result of mpileup of samtools?
for example,
7 151843760 T 33 .$,$,....,.,......,.,..,..,,..,,,.^g, >@FDCDDJEIDDEIHGJAJJIEJJFEIHDDDCC
I know the col1=chromosome, col2=base position col3=reference seq col4=depth
but what's...
|
|
Forum: Bioinformatics
08-05-2012, 04:14 AM
|
|
Replies: 2
Views: 1,258
|
|
Forum: Bioinformatics
08-04-2012, 01:04 PM
|
|
Replies: 2
Views: 1,258
|
|
Forum: Bioinformatics
08-03-2012, 09:58 PM
|
|
Replies: 7
Views: 2,262
|
|
Forum: Bioinformatics
08-03-2012, 09:56 AM
|
|
Replies: 2
Views: 2,253
MuTect -> vcf pipeline?option?
Hi, is there anyone who know the option of MuTect which gives a VCF formed result to users?
I know that we can modify the result of MuTect by switching and copying certain column,
but the extra...
|
|
Forum: Bioinformatics
08-03-2012, 09:27 AM
|
|
Replies: 2
Views: 1,160
|
|
Forum: Bioinformatics
07-31-2012, 08:22 PM
|
|
Replies: 2
Views: 1,160
is anyone who have used MuSiC in WashU?
Hello, I'm first in using MuSiC tool and got a problem.
when I calculate bmr, I used calc-bmr option and put parameters as the synopsis of website says.
however, I got this error messege;
...
|
|
Forum: Bioinformatics
05-04-2012, 09:39 PM
|
|
Replies: 5
Views: 5,018
|
|
Forum: Bioinformatics
04-29-2012, 10:03 AM
|
|
Replies: 3
Views: 2,182
|
|
Forum: Bioinformatics
04-27-2012, 12:48 AM
|
|
Replies: 5
Views: 5,018
varscan-annotation pipeline?
How to connect VarScan output and annotation tools?
is there any useful tool to directly annotate the varscan's output file?
or I have to change the form of the output file to vcf format?
|
|
Forum: Bioinformatics
04-26-2012, 11:48 PM
|
|
Replies: 3
Views: 2,182
annovar output - question
I run annovar to annotate my snp file.
I saw this message:
WARNING: A total of 273 sequences will be ignored due to lack of correct ORF annotation
somebody please let me know what's the...
|
|
Forum: Bioinformatics
03-24-2012, 04:31 AM
|
|
Replies: 1
Views: 1,541
|
