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sarahhunter
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600
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Pierre Lindenbaum
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Za
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Ram
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Zhangleisdau
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340
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fhsantanna
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610
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50
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Ram
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8 follow
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shenwei356
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hcwang
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50
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Lars
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970
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updated 18 days ago by
Ram
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Istvan Albert
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131
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Guangchuang Yu
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Eric Normandeau
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18
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dzisis1986
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updated 12.2 years ago by
Khader Shameer
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Andrea_Bio
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fishgolden
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460
188
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47
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Bioinfexperts
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190
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Ram
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Jeremy Leipzig
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28 follow
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Ram
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Andra Waagmeester
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105
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46
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updated 3 months ago by
Ram
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ugly.betty77
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106
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30 follow
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30
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Mchimich
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45
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updated 11 months ago by
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450
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There really is no "best". Just find something reasonable, and document what you chose.
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ok interesting.
Do all, most, some, or a few of the genes have repeated lines. Is there a handy link to the exact file you are looking at?
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Bedtools window piped into genomecov?
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STAR counts are the raw counts, that is appropriate for DESeq2.
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STAR has a GeneCounts output that looks as you describe; three columns, depending on whether one thinks the prep is unstranded, or stranded…
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There is at least one more step that you haven't shared, isn't there? This line alone does not get you the data. You don't need to give us …
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my entire code is not done. All I am trying to understand is if the STAR - counts downloaded from this query have raw reads. There are head…
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Please provide your entire code so those of us wishing to do a quick test can download and check for ourselves. Also, please use the format…
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```r
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It may be best to email NCBI help desk with these questions. Post their response here once you hear back from them.
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What data are you downloading? Can you show us your GDCquery commands please?
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I am working on cow, Bos Taurus. The Arabidopsis code was an example code that was on Salmon's github and an example for indexing they gave…
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> I am using the Bos Taurus files
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Thank you, yes I am using the newer version of Ensembl. Above with Arabidopsis is the example Salmon gave, I am using the Bos Taurus files.…
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Show us your exact cellranger and STARsolo commands, the full output to STARsolo as well as your thoughts on why it's not working for you.
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