User: hongen.hugo.xu

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Posts by hongen.hugo.xu

<prev • 10 results • page 1 of 1 • next >
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Comment: A: remove primer sequences from BAM file
... Hi Dr. Jiang, did you find any better solutions? ...
written 4 months ago by hongen.hugo.xu0
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Comment: C: Pheatmap Annotation
... it works. Thanks. Do you know how can I label "EXP1" as "EX^p1" (p1 is in superscript)? ...
written 3.4 years ago by hongen.hugo.xu0
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Answer: A: copyCat error (copyCat2)
... Did you solve your problem? bam-window has parameters -l and -r, you need to specify them when you run bam-window. ...
written 3.6 years ago by hongen.hugo.xu0
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Answer: A: mpileup 10 column format for copyCat
... mpileup 10 columns seems deprecated, see https://software.broadinstitute.org/gatk/gatkdocs/org_broadinstitute_gatk_tools_walkers_qc_CheckPileup.php CopyCat also accepts VCF input, you may try this format. I am also trying to run CopyCat using VCF files as input. ...
written 3.6 years ago by hongen.hugo.xu0
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Comment: C: Finding Mappability With Peakseq
... this solved the problem same with chhylp123. Thanks ...
written 3.6 years ago by hongen.hugo.xu0
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Comment: C: Which Somatic SNP Callers to Benchmark?
... Did it get published?Thanks. ...
written 3.9 years ago by hongen.hugo.xu0
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Comment: C: How to read Affymetrix CYCHP File
... Dear Christian, would you please explain the logic of the following line? my $baf = ($AllelePeaks0 - 250)/(750-250); thanks ...
written 5.0 years ago by hongen.hugo.xu0 • updated 4 months ago by RamRS27k
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Comment: C: How Can I Use Penncnv With Samples Genotyped With Cytoscan Hd?
... Did you manage it to use PennCNV-affy to prepare files for pennCNV from cytoscan hd cel files? ...
written 6.0 years ago by hongen.hugo.xu0
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Comment: C: Errors When Compile Reas V2.02
... Thanks for your comments. I have found this post and the openware link. And I followed the directions there, but have no luck. These errors still occured. I have to use this program because it's the reviewer's suggestion.Do you have the binary file of ReAS? Would you please send me a copy? ...
written 7.1 years ago by hongen.hugo.xu0
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Errors When Compile Reas V2.02
... When I tried to compile ReAS using "make", errors occured as following: g++ -O3 -c Clustering.cpp -o Clustering.o Clustering.cpp:29:22: warning: deprecated conversion from string constant to ‘char*’ Clustering.cpp:30:23: warning: deprecated conversion from string constant to ‘char*’ Clustering. ...
written 7.1 years ago by hongen.hugo.xu0 • updated 7.1 years ago by SES8.3k

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Popular Question 3.4 years ago, created a question with more than 1,000 views. For Errors When Compile Reas V2.02

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