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How to extract all ONT reads that connect/overlaps two or more contigs ?

reads nanopore scaffolding overlaps written 5 months ago by BioGeek • 130

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How to plot overlapping fragments in Circos ?

circos plots overlaps written 6 months ago by BioGeek • 130

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How to find overlapping regions among three bed files [Solved]

bedtools overlaps written 2.8 years ago by Bioradical • 50 • updated 2.8 years ago by Alex Reynolds ♦ 25k

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Recent Replies

C: A way to verify that GFF and Fasta files make a valid pair (came from the same p by Carambakaracho • 430
One additional note: You'll make your and your colleagues life easier in the future if you includ...
C: Difference in FPKM values of lncRNA when using different annotation files by Kevin Blighe ♦ 25k
To add to what Grant has said, which is perfectly valid, I have to state that FPKM should not be ...
C: Know if a pathway is being functionally activated or repressed by a group of up- by salamandra • 160
Thank very much. This is really useful
C: remove primer sequences from BAM file by WouterDeCoster ♦ 31k
An alternative solution would be to use the -L argument of GATK to specify variant calling to a c...
C: Chromosome lost after merge with vcf-merge by Kevin Blighe ♦ 25k
Great. I've moved my comment to an answer, to help others. To re-iterate: BCFtools should be used...
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Hi nehleen11, Your question is not more urgent than any other question here and writing `Urgent`...
C: How to acknowledge in the paper a reference genome that hasn't been published ye by WouterDeCoster ♦ 31k
And a fourth option may be that the other group publishes their paper describing the new referenc...
C: Giga base or Giga byte by WouterDeCoster ♦ 31k
If an answer was helpful you should upvote it, if the answer resolved your question you should ma...
A: Difference in FPKM values of lncRNA when using different annotation files by grant.hovhannisyan • 970
IMHO, when you use only lncRNA annotations, your library size (total number of mapped reads overl...
C: Giga base or Giga byte by Shawrob400 • 0
thank you very much
C: Giga base or Giga byte by genomax ♦ 54k
If you have a 100,000,000 bp genome and received 1,000,000,000 bp of sequence data (as a file of ...
C: Estimating the purity of tumor cells in microarray data by btsui • 160
You might need to clarify what kind of array that you are talking about. Like methylation, expres...

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