User: Shicheng Guo
Shicheng Guo • 6.5k
- Reputation:
- 6,530
- Status:
- Trusted
- Location:
- Last seen:
- 2 weeks, 2 days ago
- Joined:
- 3 years, 2 months ago
- Email:
- s***********@hotmail.com
Posts by Shicheng Guo
<prev
• 454 results •
page 1 of 46 •
next >
0
votes
0
answers
100
views
0
answers
... I want to download and re-analysis AMED-CREST methylation dataset. Who knows how to access it?
http://epigenomesportal.ca/ihec/download.html?b=2017-10&as=1&i=7&ctc=23&session=8652
Thanks. ...
written 17 days ago by
Shicheng Guo • 6.5k
4
votes
1
answer
102
views
5 follow
1
answer
... Plink really does a great job when it calculate LD and even for multiple haplotypes/phasings, LDs are provided. However, the posterior probability were lost, right? How to choose the best one when it happened like this situation?
> --ld rs998731 rs77356712: Multiple haplotype phasing solut ...
written 24 days ago by
Shicheng Guo • 6.5k
• updated
24 days ago by
chrchang523 ♦ 3.9k
1
vote
0
answers
247
views
0
answers
Comment:
C: Awk in Bioinformatics
... Yes. I just record it for myself. and I am happy if it helps others. if not, I am sure it is no harm to others, right? ...
written 24 days ago by
Shicheng Guo • 6.5k
1
vote
3
answers
341
views
3
answers
... Great try. Thanks fin swimmer! ...
written 24 days ago by
Shicheng Guo • 6.5k
7
votes
0
answers
247
views
5 follow
0
answers
Forum:
Awk in Bioinformatics
... Here to show the examples to use awk with powerful recombination: I will update more examples.
1. Merge column 4 and 5 and ouput to the file named as column 1 and 3.
```
awk '{print $4"\n"$5 > "./snpset/$1.$3.txt}' GRCH37.SNP150.bed
```
2. Split and print content to it (as filename)
```
awk ...
written 25 days ago by
Shicheng Guo • 6.5k
1
vote
3
answers
341
views
3
answers
... Great suggestion. Thanks.Chris!! It will try plink 2.0 more ...
written 25 days ago by
Shicheng Guo • 6.5k
1
vote
3
answers
341
views
3
answers
... it will be perfect if tabix could accept rs number as the input.
...
written 26 days ago by
Shicheng Guo • 6.5k
3
votes
3
answers
341
views
3
answers
... With the help of tabix, just few minutes rather than days to complete the LD
use strict;
use Cwd;
my $dir=getcwd;
chdir $dir;
my $genome="/gpfs/home/guosa/hpc/db/hg19/1000Genome";
mkdir "Shuffle" if ! -e "Shuffle";
my $file="/gpfs/home/guosa/nc/GWAS-378.DMER.bed.sort.bed ...
written 26 days ago by
Shicheng Guo • 6.5k
31
votes
3
answers
341
views
12 follow
3
answers
... Hi All,
I need to do some permutation test to random sampling millions of SNPs set genotyping data from 1000 genome phase III dataset. each SNP-set only contains ~300 SNPs, however, I found the extract process is quite slow. for example, for the ALL.chr1.phase3_shapeit2_mvncall_integrated_v5a.20130 ...
written 27 days ago by
Shicheng Guo • 6.5k
• updated
26 days ago by
chrchang523 ♦ 3.9k
2
votes
2
answers
2.7k
views
2
answers
... In terms of phase III data-set from [1000 Genome project, only 2149549/84802133=2.5%][1] have >50% or higher Alternative allele frequency. It make sense since human genome is derived from several individual human genome and therefore, the reference genome should have high probability to be major ...
written 29 days ago by
Shicheng Guo • 6.5k
Latest awards to Shicheng Guo
Student
17 days ago,
asked a question with at least 3 up-votes.
For Public data access: Single-cell RNA-seq and Buck RNA-seq data
Student
5 weeks ago,
asked a question with at least 3 up-votes.
For Public data access: Single-cell RNA-seq and Buck RNA-seq data
Scholar
6 weeks ago,
created an answer that has been accepted.
For A: significant differential expressed gene validation
Popular Question
6 weeks ago,
created a question with more than 1,000 views.
For Bad Exprience on bigwig Format Visualization in UCSC
Popular Question
8 weeks ago,
created a question with more than 1,000 views.
For Bad Exprience on bigwig Format Visualization in UCSC
Student
8 weeks ago,
asked a question with at least 3 up-votes.
For Public data access: Single-cell RNA-seq and Buck RNA-seq data
Popular Question
9 weeks ago,
created a question with more than 1,000 views.
For Bad Exprience on bigwig Format Visualization in UCSC
Popular Question
3 months ago,
created a question with more than 1,000 views.
For Vector NTI in Window 10
Popular Question
3 months ago,
created a question with more than 1,000 views.
For Bad Exprience on bigwig Format Visualization in UCSC
Great Question
3 months ago,
created a question with more than 5,000 views.
For fastq-dump split-spot and skip-technical
Popular Question
3 months ago,
created a question with more than 1,000 views.
For Vector NTI in Window 10
Popular Question
3 months ago,
created a question with more than 1,000 views.
For Bad Exprience on bigwig Format Visualization in UCSC
Popular Question
4 months ago,
created a question with more than 1,000 views.
For Vector NTI in Window 10
Popular Question
4 months ago,
created a question with more than 1,000 views.
For Vector NTI in Window 10
Student
5 months ago,
asked a question with at least 3 up-votes.
For Public data access: Single-cell RNA-seq and Buck RNA-seq data
Commentator
5 months ago,
created a comment with at least 3 up-votes.
For C: Fastqc to BS-seq dataset (Methylation-seq quality control)
Prophet
5 months ago,
created a post with more than 20 followers.
For Good Habit for Bioinformatics Analyst or Scientist
Popular Question
5 months ago,
created a question with more than 1,000 views.
For Vector NTI in Window 10
Popular Question
5 months ago,
created a question with more than 1,000 views.
For Vector NTI in Window 10
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 1110 users visited in the last hour