Question: Web Page Converting Seq Mapping Score
1
gravatar for kanwarjag
7.4 years ago by
kanwarjag1.1k
United States
kanwarjag1.1k wrote:

I am sure it is a very simple question and has been answered here, however I could not find it and has googled it too. I used to use a web page where you add the mapping score after BWA/ Bowtie 2 alignments like 16, 274 -----. it will tell me whether reads are uniquely aligned, one mate aligned aligned to reverse strand and so on. However I am not finding that page Could some one point me to that URL I have spent lot of time searching this. I promise to book mark the site.

Thanks

mapping sequencing • 1.3k views
ADD COMMENTlink modified 2.9 years ago by Simply Bioinformatics170 • written 7.4 years ago by kanwarjag1.1k
3
gravatar for Chris Miller
7.4 years ago by
Chris Miller21k
Washington University in St. Louis, MO
Chris Miller21k wrote:

I think you're talking about SAM flags and referring to this very useful webpage: http://picard.sourceforge.net/explain-flags.html

ADD COMMENTlink written 7.4 years ago by Chris Miller21k
0
gravatar for Simply Bioinformatics
2.9 years ago by
WashingtonDC
Simply Bioinformatics170 wrote:

Four Main reference Site that You might need during your adventure:

ENJOY ;)

1) https://broadinstitute.github.io/picard/explain-flags.html

2)http://www.samformat.info/sam-format-flag

3)http://www.samformat.info/sam-format-flag-single

4)https://ppotato.wordpress.com/2010/08/25/samtool-bitwise-flag-paired-reads/

ADD COMMENTlink written 2.9 years ago by Simply Bioinformatics170
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