Forum: General
06-21-2020, 02:18 PM
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Replies: 0
Views: 1,969
Error in VCF annotation with Gvanno
Below is the command I used to run Gvanno:
./gvanno-1.3.0/gvanno.py ./sample.hard.filtered.vcf.gz --container docker ./gvanno-1.3.0 ./gvanno-1.3.0/examples grch37 ./gvanno-1.3.0/gvanno.toml out
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Forum: Bioinformatics
03-03-2015, 09:04 AM
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Replies: 7
Views: 1,784
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Forum: Bioinformatics
03-03-2015, 09:01 AM
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Replies: 7
Views: 1,784
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Forum: Bioinformatics
03-02-2015, 10:40 PM
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Replies: 7
Views: 1,784
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Forum: Bioinformatics
02-27-2015, 10:44 AM
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Replies: 7
Views: 1,784
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Forum: Bioinformatics
02-26-2015, 08:19 AM
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Replies: 7
Views: 1,784
Amazon Cloud question
I just created an Amazon Cloud account for NGS data analysis, but don't know how to set it up.
What's the instance that has NGS data analysis tools pre-installed?
Is there any good tutorial...
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Forum: Bioinformatics
04-07-2013, 03:05 PM
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Replies: 2
Views: 2,337
CHIP-Seq analysis
I'm very new in ChIP Seq data analysis.
Is there any CHIP Seq analysis pipeline that I can use? Any tutorial of CHIP Seq data analysis?
Thanks,
Slny
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Forum: Bioinformatics
10-13-2012, 09:57 AM
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Replies: 7
Views: 3,067
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Forum: Bioinformatics
10-07-2012, 06:05 PM
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Replies: 7
Views: 3,067
commercial software in sequencing analysis
Hi,
I just got some funding to purchase commercial software for next generation sequencing data analysis, but I'm very new in sequencing analysis.
Could anyone give me a list of the commonly...
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Forum: Bioinformatics
06-14-2011, 07:15 AM
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Replies: 14
Views: 4,617
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Forum: Bioinformatics
06-08-2011, 01:31 PM
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Replies: 0
Views: 1,645
RepeatMasker question
Hi,
Under what circumstances should I use RepeatMasker to pre-process the sequencing data?
Thanks,
Slny
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Forum: Bioinformatics
06-08-2011, 12:35 PM
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Replies: 0
Views: 971
contamination removal question
Hi,
I'm trying to remove contamination from the trimmed reads. Should I blast the reads against the contamination species genome or run sequence alignment against the contamination species...
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Forum: Bioinformatics
06-08-2011, 12:32 PM
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Replies: 14
Views: 4,617
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Forum: Bioinformatics
06-08-2011, 08:44 AM
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Replies: 14
Views: 4,617
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Forum: Bioinformatics
06-07-2011, 07:29 AM
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Replies: 14
Views: 4,617
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Forum: Bioinformatics
06-07-2011, 04:06 AM
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Replies: 8
Views: 3,819
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Forum: Bioinformatics
06-07-2011, 04:04 AM
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Replies: 14
Views: 4,617
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Forum: Bioinformatics
06-06-2011, 06:34 PM
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Replies: 8
Views: 3,819
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Forum: Bioinformatics
06-06-2011, 07:53 AM
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Replies: 8
Views: 3,819
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Forum: Bioinformatics
06-06-2011, 07:19 AM
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Replies: 9
Views: 3,393
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Forum: Bioinformatics
06-05-2011, 07:43 PM
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Replies: 0
Views: 1,388
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Forum: Bioinformatics
06-05-2011, 07:03 PM
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Replies: 9
Views: 3,393
Thanks a lot for your explanation. If I choose...
Thanks a lot for your explanation. If I choose bowtie for sequence alignment, should I run everything in TopHat because it also calls Bowtie? If so, I don't need to run a separate Bowtie before I...
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Forum: Bioinformatics
06-05-2011, 05:46 PM
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Replies: 8
Views: 3,819
PCR duplicates questions
Hi,
I'm still confused about PCR duplicates removal and have some questions about it.
1. What is PCR duplicates? Can I say that all reads mapped to the same genome location are PCR...
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Forum: Bioinformatics
06-05-2011, 04:24 PM
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Replies: 9
Views: 3,393
Thanks a lot for all the responses. Very...
Thanks a lot for all the responses. Very helpful.
pbluescript, do you use BWA for sequence alignments, and then re-align the unmapped reads with Bowtie followed with TopHat for exon junctions? ...
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Forum: Bioinformatics
06-05-2011, 04:30 AM
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Replies: 14
Views: 4,617
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