zhoudreames

mac shortcut key problem

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my mac computer system is macOs 0.13.6 ，The use of shortcut keys is inconsistent with that of the menu bar. for example ,the shortcut keys of Hide selected nodes is...

the location is changing when merge different software SVs

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I used a single sample with three different SV caller software(dipcall,svim,assemblitcs) to gain three SVsets. Then, I run this code: SURVIVOR merge 3soft.txt 1000 1 1 0 0 50 3soft.vcf....

I get the vcf files with graphtyper, but the column of REF and ALT doesn't contain sequence information. For example:  but I want to gain such format, the REF...

I want to call and genotype SV with population-level by using manta-svimmer-graphtype workflow, but I don't know how to gain the tutorial of the whole process, Can you provide me...

Can I get the information of HiC phased in the graph

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 I want to gain the hic linked information between utgs，how to get it ？ thanks

can I convert single line path from complex structures into fasta files

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 how to convert the single path gfa from complex structures graph into fasta file with gfatools? thanks

bining Hi-C reads

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in your https://github.com/marbl/merqury/blob/master/trio/exclude_reads.sh， we used father or mother unique kmer to bin the child's reads, how to build the pat.meryl or mat.mery ? and whether the kmer database is required...

I want to predict centromere Location，but i dont know how to train the modle.I see my repeatMask annoation result in centromere,the centromere primary contain two class centromere Satellite(SSAT_A,SSAT_B),those different from...

For our no-human genome, the ADAM6 genes contain 4-6 copies， I want to estimate the copy number of ADAM6 at the population level by using WGS Illumina data. Can I...

nbase filter

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 i want to exclude N >1000 reads for RNA bam files, for example, the reads "9ae8a1cd-1a71-40d1-ab06-f1567ec79f9a" contained 1593N, it should be filtered. However , this software not work when...