User: Shicheng Guo

gravatar for Shicheng Guo
Shicheng Guo4.3k
Reputation:
4,270
Status:
Trusted
Location:
Last seen:
6 days, 16 hours ago
Joined:
1 year, 10 months ago
Email:
s***********@hotmail.com

Posts by Shicheng Guo

<prev • 334 results • page 1 of 34 • next >
0
votes
1
answer
76
views
1
answers
Comment: C: How to provide re-analysis link to previous dataset in GEO page
... GEO (least 20 characters) ...
written 9 days ago by Shicheng Guo4.3k
0
votes
1
answer
76
views
1
answer
How to provide re-analysis link to previous dataset in GEO page
... Suppose I want to upload some of my own dataset with some GEO provious dataset. In order to keep all these data tracked, How can I also provide the corresponding links to these pre-existed GEO dataset? Just like this page: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE46644 I also want t ...
geo written 10 days ago by Shicheng Guo4.3k • updated 9 days ago by igor4.2k
0
votes
4
answers
1.6k
views
4
answers
Answer: A: SRX from SRR IDs
... I can share my perl script to collect SRR and SRX information together. You can make further adoption #!/usr/bin/perl -w # A perl script to build config file for SRS Bam Merge # Version 1.3 # Go to http://sra.dnanexus.com/studies/SRP028600/samples # Select SRS and Click Re ...
written 12 days ago by Shicheng Guo4.3k
1
vote
0
answers
126
views
0
answers
Phred score check for BAM files
... Hi All, I finish a perl script to check the phred score for bam files. I just want to make sure there is no bugs in it. Thanks. > Usage: perl bam2phred.pl input.bam #!/usr/bin/perl use strict; if ($ARGV[0] =~ /^-[h?]/) { print "Usage: determine-phred FILE Reads a ...
33 score bam phred 64 written 23 days ago by Shicheng Guo4.3k • updated 6 days ago by Biostar ♦♦ 20
0
votes
0
answers
100
views
0
answers
Comment: C: The maximum number of CG within 300bp in human genome
... roughly estimation should be quite easy with sliding window way, however, exactly estimation maybe not. I just want to see whether they are some great statistic fellows or computer specialist have some excellent method ...
written 5 weeks ago by Shicheng Guo4.3k
0
votes
0
answers
100
views
0
answers
The maximum number of CG within 300bp in human genome
... Hi All, Question: the maximum number of CG within 300bp genomic windows in human genome (hg19). Perl code will be welcome! Thanks. ...
cpg written 5 weeks ago by Shicheng Guo4.3k
1
vote
1
answer
118
views
1
answer
mysql command to download mm9 Mappability tables from Mapping and Sequencing
... Hi All, Anyone can share the mysql command to download 'Mappability' tables from 'Mapping and Sequencing' group? check the link of ['Mappability'][1] Sincerely, [1]: https://genome.ucsc.edu/cgi-bin/hgTables?hgsid=588551011_zBvgHayMIAObFzAUasaEmCtCoxOL&clade=mammal&org=Mouse&db= ...
mapping and sequencing mappability written 6 weeks ago by Shicheng Guo4.3k • updated 6 weeks ago by Pierre Lindenbaum94k
0
votes
0
answers
136
views
0
answers
Get Get GC Content from UCSC with perl script (mysql)
... Hi All, I have a bed file contents hundred of human genomic regions. I want to get some basic characteristics for these genomic regions, like GC contents et.c. Any perl script could do it without download the fastq files for these regions. I know if you download the fasta files for these regions, ...
perl gc content myql ucsc written 6 weeks ago by Shicheng Guo4.3k
0
votes
3
answers
5.5k
views
3
answers
Comment: C: Picking Random Genomic Positions
... Some time we need keep similar GC contents or some other metric, any idea to update the script? ...
written 6 weeks ago by Shicheng Guo4.3k
0
votes
1
answer
131
views
1
answer
bedtools shuffle with adjustment of GC ratio
... Hi All, Is there any script which can be used for `bedtools shuffle` and can be applied to ‘GC' ratio control/adjustment ? I want to random re-sampling same genomic regions with same length distribution and similar 'GC' contents. Perl script will be preferred. Thanks. ...
sampling bedtools shuffle gc contents written 6 weeks ago by Shicheng Guo4.3k • updated 6 weeks ago by vchris_ngs3.2k

Latest awards to Shicheng Guo

Popular Question 15 days ago, created a question with more than 1,000 views. For Relationship table between SRX and SRR in SRA database
Teacher 22 days ago, created an answer with at least 3 up-votes. For A: error in running R
Great Question 5 weeks ago, created a question with more than 5,000 views. For Protocol To Downlad TCGA Data From GDC
Popular Question 5 weeks ago, created a question with more than 1,000 views. For Relationship table between SRX and SRR in SRA database
Popular Question 7 weeks ago, created a question with more than 1,000 views. For bedGraphToBigWig Tutorial and Report
Popular Question 3 months ago, created a question with more than 1,000 views. For How To Install BioPerl Without Root Privileges in Ubuntu/Linxu
Gold Standard 3 months ago, created a post with more than 25 bookmarks. For Good Habit for Bioinformatics Analyst or Scientist
Popular Question 3 months ago, created a question with more than 1,000 views. For fastq-dump split-spot and skip-technical
Popular Question 3 months ago, created a question with more than 1,000 views. For fastq-dump split-spot and skip-technical
Popular Question 5 months ago, created a question with more than 1,000 views. For fastq-dump split-spot and skip-technical
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: error in running R
Student 6 months ago, asked a question with at least 3 up-votes. For Definition and formula of methylation heterogeneity
Popular Question 6 months ago, created a question with more than 1,000 views. For fastq-dump split-spot and skip-technical
Popular Question 6 months ago, created a question with more than 1,000 views. For Gallery: Computational tools for DNA methylation
Popular Question 6 months ago, created a question with more than 1,000 views. For Fold change > 2 and P-value<0.05 in micro-array differential analysis
Popular Question 6 months ago, created a question with more than 1,000 views. For Fold change > 2 and P-value<0.05 in micro-array differential analysis
Popular Question 7 months ago, created a question with more than 1,000 views. For R: heatmap for triangular matrix
Appreciated 7 months ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?
Popular Question 7 months ago, created a question with more than 1,000 views. For Protocol To Downlad TCGA Data From GDC
Popular Question 8 months ago, created a question with more than 1,000 views. For R: heatmap for triangular matrix
Good Question 8 months ago, asked a question that was upvoted at least 5 times. For Protocol To Downlad TCGA Data From GDC
Appreciated 9 months ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: error in running R
Good Answer 10 months ago, created an answer that was upvoted at least 5 times. For A: What is a typical workflow to correlate methylation and expression data?
Appreciated 10 months ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1061 users visited in the last hour