User: zhengchenfei

gravatar for zhengchenfei
zhengchenfei60
Reputation:
60
Status:
Trusted
Location:
Last seen:
5 months, 4 weeks ago
Joined:
3 years, 10 months ago
Email:
z***********@163.com

Posts by zhengchenfei

<prev • 13 results • page 1 of 2 • next >
1
vote
0
answers
161
views
0
answers
(Closed) How to plot a figure like this
... Dear all, I want to plot a figure in which different data can be illustrated in the up and down of one x-axis using basic plot function in R. ![enter image description here][1] As the example indicated, Fst was plotted upon the axis, meanwhile, the pi value was plotted down the x-axis. How to draw ...
R written 7 months ago by zhengchenfei60
0
votes
0
answers
424
views
0
answers
How to choose the appropriate window size for Fst calculation
... Hi there, I'm trying to calculate the population fix index (FST) for identifying the candidate genomic region under natural selection. But I'm confused that how to choose the appropriate window size and step size. In my study, the LD decay to 0.1 after 80 kb. So I choose 80 kb as the window size. ...
next-gen written 8 months ago by zhengchenfei60
0
votes
0
answers
556
views
0
answers
Comment: C: Window-based Fst analysis
... Hi, seta Have you found the way to choose the most appropriate window size for Fst caluculation? ...
written 8 months ago by zhengchenfei60
0
votes
0
answers
192
views
0
answers
Comment: C: problem about parallel in R
... Yes i'm using windows. Here is my sessionInfo() R version 3.5.1 (2018-07-02) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows >= 8 x64 (build 9200) Matrix products: default locale: [1] LC_COLLATE=Chinese (Simplified)_China.936 LC_CTYPE= ...
written 9 months ago by zhengchenfei60 • updated 9 months ago by Kevin Blighe65k
0
votes
0
answers
192
views
0
answers
problem about parallel in R
... Dear all: I have a question when I run a R script in parallel. # library(parallel) library(mvtnorm) source('./function.R') snp <- read.table('./high_19.gt', header = T, check.names = F) pheno <- read.table('./area_h.txt', header = T, stringsAsFactors = F)#, ...
R written 9 months ago by zhengchenfei60 • updated 9 months ago by Kevin Blighe65k
0
votes
0
answers
419
views
0
answers
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 12 months ago by zhengchenfei60
0
votes
0
answers
419
views
0
answers
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 12 months ago by zhengchenfei60
0
votes
0
answers
419
views
0
answers
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 12 months ago by zhengchenfei60
1
vote
1
answer
2.9k
views
1
answers
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 2.6 years ago by zhengchenfei60
0
votes
0
answers
2.1k
views
0
answers
Comment: A: RNAfold installation error
... hey justa have you solved this problem yet ? ...
written 2.6 years ago by zhengchenfei60

Latest awards to zhengchenfei

Popular Question 2.4 years ago, created a question with more than 1,000 views. For How to calculate LD statistics using unphased haplotypes with vcftools
Teacher 2.4 years ago, created an answer with at least 3 up-votes. For A: Vcftools r2 Error: Insufficient sites remained after filtering or No data left

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1192 users visited in the last hour