tandem-genotypes

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How to visualize reads containing expansions

6

Hello, here's my issue: I ran tandem-genotypes on long reads (Oxford Nanopore) on a RepeatMasker locus and obtained this result: ` chr11 70487135 70487173 TGC SHANK2 coding 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,1,2,2,2,3 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,1,1,1,1,2,3` Therefore...

gspirito

Sequence alignment takes too much time

3

Hi, we want to use ```tandem-genotypes``` to detect tandem repeats in genome-wide data. Following your instructions, I must first align my sequence using last before running ```tandem-genotypes```. Unfortunately, last takes...

LiShuhang-gif

Consensus sequences disagree with predicted numbers of repeats

4

Dear tandem-genotypes developers, I am using tandem-genoypes v1.8.3 to obtain consensus sequences for the two alleles. After running the alignment with last, I am running: ``` tandem-genotypes -v -o2 $TARGET...

MaestSi