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User: Shicheng Guo

gravatar for Shicheng Guo
Shicheng Guo • 4.4k
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Joined:
2 years ago
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Posts by Shicheng Guo

<prev • 337 results • page 1 of 34 • next >
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Comment: C: TF motif binding region searching script in human genome
... Yes. It is exactly what I need. Thanks. ...
written 5 weeks ago by Shicheng Guo • 4.4k
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6 follow
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TF motif binding region searching script in human genome
... Hi All, I have one interest TF and its motif sequence is known (both logo and frequency matrix) and I want to identify all the related genomic regions. Is there any Perl, R or Python script to share? blat don't works since sequence length is too short. FYI: motif logo (14bp) : [TGGCACCATG ...
motif logo written 5 weeks ago by Shicheng Guo • 4.4k • updated 5 weeks ago by EagleEye • 4.2k
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Comment: C: Phred score check for BAM files
... I hope to achieve the phred score from bam files which download from public database with this script. ...
written 7 weeks ago by Shicheng Guo • 4.4k
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Comment: C: How to provide re-analysis link to previous dataset in GEO page
... GEO (least 20 characters) ...
written 8 weeks ago by Shicheng Guo • 4.4k
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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 8 weeks ago by Shicheng Guo • 4.4k • updated 8 weeks ago by igor • 4.4k
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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 9 weeks ago by Shicheng Guo • 4.4k
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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 10 weeks ago by Shicheng Guo • 4.4k • updated 8 weeks ago by Biostar ♦♦ 20
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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 3 months ago by Shicheng Guo • 4.4k
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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 3 months ago by Shicheng Guo • 4.4k
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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 3 months ago by Shicheng Guo • 4.4k • updated 3 months ago by Pierre Lindenbaum ♦ 96k

Latest awards to Shicheng Guo

Popular Question 9 days ago, created a question with more than 1,000 views. For Relationship table between SRX and SRR in SRA database
Popular Question 4 weeks ago, created a question with more than 1,000 views. For Relationship table between SRX and SRR in SRA database
Student 4 weeks ago, asked a question with at least 3 up-votes. For Converting Phred64 fastq to Phred33 fastq
Popular Question 4 weeks ago, created a question with more than 1,000 views. For Relationship table between SRX and SRR in SRA database
Student 5 weeks ago, asked a question with at least 3 up-votes. For Converting Phred64 fastq to Phred33 fastq
Good Answer 7 weeks 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 7 weeks 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 weeks ago, created a question with more than 1,000 views. For Relationship table between SRX and SRR in SRA database
Popular Question 9 weeks ago, created a question with more than 1,000 views. For Relationship table between SRX and SRR in SRA database
Teacher 10 weeks ago, created an answer with at least 3 up-votes. For A: error in running R
Great Question 12 weeks ago, created a question with more than 5,000 views. For Protocol To Downlad TCGA Data From GDC
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