Forum: Bioinformatics
03-28-2015, 10:53 AM
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Replies: 14
Views: 7,161
I am struggling with the alignment of my .dat...
I am struggling with the alignment of my .dat file (4Gb) with the reference build file hg19.dat. Both the dat files have been made using MosaikBuild
(i) MosaikBuild -fr hg19.fa -oa hg19.dat
(ii)...
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Forum: Bioinformatics
09-25-2012, 03:47 AM
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Replies: 6
Views: 11,482
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Forum: Bioinformatics
09-25-2012, 03:08 AM
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Replies: 6
Views: 11,482
How to fetch sequence from chromosome coordinates
Hi all
I have chromosome coordinates (e.g. 5233922 to 5235189 of chr18). how can I get the sequence corresponding to this region ?
Like this I have huge file containing chr1 to chr21 and chr X and...
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Forum: Bioinformatics
09-25-2012, 02:54 AM
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Replies: 0
Views: 778
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Forum: RNA Sequencing
09-04-2012, 02:51 AM
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Replies: 0
Views: 1,566
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Forum: Bioinformatics
08-23-2012, 03:48 AM
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Replies: 3
Views: 2,689
hi
I got two solutions
(1) Here is a...
hi
I got two solutions
(1) Here is a perl script to convert wig to a bedgraph format: http://genomewiki.ucsc.edu/images/9/9d/FixStepToBedGraph_pl.txt
(2) googling for wig2bed returns a...
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Forum: Bioinformatics
07-02-2012, 09:50 PM
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Replies: 3
Views: 2,689
Convert WIG file into Fasta file
Hi all
I have a *.wig file which contains some mutation information. This file is easily viewed from the IGV viewer. But I want to convert this file into FASTA file or some other file so that I...
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Forum: Bioinformatics
06-23-2012, 01:46 AM
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Replies: 1
Views: 2,391
Implementation of IGV or IGB tool on web page.
Hi all
I have aligned short reads on the refernce genomes and these are analysed by the IGV and IGB tools as standalone versions. But I want to implement these tools on my web page so that any user...
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Forum: RNA Sequencing
05-10-2012, 09:55 PM
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Replies: 1
Views: 2,901
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Forum: RNA Sequencing
05-10-2012, 01:59 AM
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Replies: 1
Views: 1,315
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Forum: Bioinformatics
05-09-2012, 12:02 AM
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Replies: 7
Views: 3,933
Hi all
I have RNA-seq data (2 control sets and...
Hi all
I have RNA-seq data (2 control sets and 2 test sets). I have generated the *.sorted.bam files (~1GB) through bowtie software. Right now I am using cufflinks software to generate RPKM values...
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Forum: Introductions
04-21-2012, 11:46 PM
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Replies: 6
Views: 4,596
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Forum: Introductions
04-21-2012, 12:17 AM
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Replies: 6
Views: 4,596
Hi
I downloaded the hg19.2bit file from UCSC...
Hi
I downloaded the hg19.2bit file from UCSC browser site. Then converted that into fasta format using twoBitToFa utility. hg19.2bit was ~778 MB and hg19.fa was 3 GB. But when I opened that .fa file...
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Forum: Introductions
04-20-2012, 10:40 PM
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Replies: 6
Views: 4,596
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Forum: Introductions
04-20-2012, 06:48 AM
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Replies: 6
Views: 4,596
RNA-seq READS mapping on Reference Genome
Hi all
I am new entrant on this platform. I am a tyro on NGS analysis. What motivated me to come into this field is basically emergence of NGS data exponentially. Also presently my project is...
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