User: New2R

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New2R20
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Posts by New2R

<prev • 5 results • page 1 of 1 • next >
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Comment: C: bcl2fastq on Mac
... I tried conda and installed bcl2fastq-nextseq. Now I am having trouble executing it. I tried bcl_to_fastq -R /path to runfolder-dir/ -O /path to output-dir/ --ignore-missing It gave me the following error Using /Users/path to runfolder-dir/SampleSheet.csv [2019-02-07 ...
written 3 months ago by New2R20
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bcl2fastq on Mac
... Does bcl2fastq work on a mac? bcl2fastq is available as a Linux rpm file bcl2fastq2-v2.20.0.422-Linux-x86_64.rpm. I tried extracting the the rpm contents by first installing rpm2cpio on mac using brew brew install rpm2cpio seen here ([http://macappstore.org/rpm2cpio/][1]). Then extracted cont ...
next-gen written 3 months ago by New2R20 • updated 6 weeks ago by GokalpC40
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GFF3 to 12-column BED
... I am trying to get refseq annotation (txStart, txEnd, cdsStart, cdsEnd, exonStarts, exonsEnds etc) from NCBI, in a format that is downloadable from UCSC Table Browser. The data from UCSC is in a table format (12 column BED) and easy to parse and manipulate. The NCBI data is in GFF3 format that I am ...
gff3 bed written 2.7 years ago by New2R20 • updated 22 months ago by t_pod10
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Comment: C: How Much Does It Cost To Align A Flowcell In The Cloud?
... 1. When you say exome, can you please clarify the details of the exome? Is it a 50 Mb exome? 2. My calculation assumptions for 50 Mb exome at 150X coverage is 50 Mb X 150 X 2 (50% on target dues to coverage on introns) = 15 Gb output. Would the compute costs of $23 be applicable here? 3. Are cost ...
written 3.0 years ago by New2R20
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Phylop Conservation Score Based On Human, Chimp, Orangutan And Rhesus Genomes
... How can one generate PhyloP values for only a few species (entire genome) ...say Human, Chimp, Orangutan and Rhesus...instead of relying on the PhyloP values for 44 or 46 species (that includes Primate, placental mammals, and vertebrates species) that can be downloaded from UCSC website? This is bec ...
conservation genome written 8.2 years ago by New2R20 • updated 4.7 years ago by Biostar ♦♦ 20

Latest awards to New2R

Popular Question 16 months ago, created a question with more than 1,000 views. For Phylop Conservation Score Based On Human, Chimp, Orangutan And Rhesus Genomes
Popular Question 8.2 years ago, created a question with more than 1,000 views. For Phylop Conservation Score Based On Human, Chimp, Orangutan And Rhesus Genomes

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