User: zhengchenfei

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zhengchenfei60
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Posts by zhengchenfei

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Question about generate a mappability mask file for non-human species
... the data i used is the tutorial example file provided by SNPable regions website (ftp://ftp.sanger.ac.uk/pub/1000genomes/reference/). I have tried to connect with Heng Li, who is the author but no I got no answer. ...
written 4 weeks ago by zhengchenfei60
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Comment: C: Question about generate a mappability mask file for non-human species
... Hi Vitis, I have confirmed the length of FASTA entries. The sequence length is shorter after masking. For chromosome 1, there are 247,249,800 characters, while only 4,120,900 characters remain after masking. I assumed there are some issues during mapping shorter read against the reference fasta file ...
written 5 weeks ago by zhengchenfei60
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Question about generate a mappability mask file for non-human species
... Dear All Recently, I'm learning how to generate a mask file for non-human species. So I followed the instruction on Heng Li's SNPable Regions website and I'm using human_b36_male.fa as an example. However, I have some issues when generating the mask file. When I check the final result file 'mask_35_ ...
assembly written 5 weeks ago by zhengchenfei60
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Comment: C: Vcftools r2 Error: Insufficient sites remained after filtering or No data left
... vcftools --vcf 133Samples.GATK.QC.MAF5.recode.vcf --geno-r2 It's OK --phased is not nessessary ...
written 20 months ago by zhengchenfei60
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Comment: A: RNAfold installation error
... hey justa have you solved this problem yet ? ...
written 20 months ago by zhengchenfei60
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Comment: A: Getting data into Plink! and TreeMix
... hi, have you solved this problem ? I have same problem. Thank you ...
written 2.7 years ago by zhengchenfei60
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How to calculate LD statistics using unphased haplotypes with vcftools
... I want to calculate the LD statistics with SNP data using vcftools. But the genotype is unphased. Is there any way to calculate the LD with unphased genotype using vcftools. Thank you ...
snp written 3.0 years ago by zhengchenfei60
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Answer: A: Vcftools r2 Error: Insufficient sites remained after filtering or No data left
... hello, i have this problem too. Did you solve it yet? ...
written 3.0 years ago by zhengchenfei60

Latest awards to zhengchenfei

Popular Question 18 months ago, created a question with more than 1,000 views. For How to calculate LD statistics using unphased haplotypes with vcftools
Teacher 18 months ago, created an answer with at least 3 up-votes. For A: Vcftools r2 Error: Insufficient sites remained after filtering or No data left

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