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Old 03-27-2016, 07:28 PM   #1
yong peng
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Location: China

Join Date: Mar 2016
Posts: 1
Question remove scaffold and other unplaced sequence before mapping?

I downloaded reference genomes from Ensembl (fasta format). But there are lots of sequences with name "dna:scaffold":

Such as Mouse_GRCm38 (mm10), except chromosome 1-19, Mt, X and Y; others should be removed before mapping ?

Such as Human_GRCh38.p5 (hg38),, there are 516 sequences. In addition to chromosome 1-22, Mt, X and Y; others (such as CHR_HG2241_PATCH and KI270728.1) should be removed before mapping ?

Last edited by yong peng; 03-27-2016 at 07:30 PM.
yong peng is offline   Reply With Quote

analysis, bioinfomatics, mapping, next gen sequencing, reference genome

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