lizhichao

core dumped

13

Hi: when i run graphtyper,it broken with the error,that means the computer node's cpu cant satisfy the graphtyper runnning? if so,when i run the script with 350 samples, what is...

How do I connect the input and output of the three software (manta+svimmer+graphtyper)

1

Hi Manta has three variants file:diploidSV.vcf.gz ,candidateSV.vcf.gz and candidateSmallIndels.vcf.gz so ,should i merge the corresponding which file type(candidateSV.vcf.gz ? discard diploidSV.vcf.gz andcandidateSmallIndels.vcf.gz) to the config.sh of make_graphtyper_pipeline.sh? In addition, the...

assembling long reads using HASLR... failed ERROR

9

Hi： I downsample the ONT data to 60X，and MGI data to 40X, and running the script as follow: sh ~/USER/Assembly/haslr/script/lowdepth_script/haslr_base.sh ~/USER/Assembly/outdir2/fastq/ONT_60X/NA24385_ONT.60X.fastq.gz ~/USER/Assembly/outdir2/fastq/T7_40X/NA24385_T7.40X.clean_1.fq.gz ~/USER/Assembly/outdir2/fastq/T7_40X/NA24385_T7.40X.clean_2.fq.gz ~/Assembly/outdir2/haslr_out/T740_ONT60 and My haslr_base.sh : ontfq=$1 r1=$2...

speed running

14

Hi, im running the software to assembly the human genome, i have runned one day, and it is still running,so how can i speed it? generally speaking , what memory...

How to get the avaliable snp list with corrected beta used in LDpred2-auto module

2

There is a summary statistic from the EAS population(No validation data, No bim, No genotype data), so how can I get the final snplist with corrected beta in the best...

How to draw a mirror manhattan plot with CMplot?

1

like this 

Should extract overlap or union snps when different traits with different position

1

as the title,Should we extract overlap or union snps among the traits before plotting Manhattan for GWAS with different SNP positions that running for different traits?

Hi, I use same control in two gwas study. Then run Meta ,I set "OVERLAP ON" and the running log contains “## Correction for samples overlap enabled” .But the "N...