User: A
A • 10
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Posts by A
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... Ok thank you! Yes I am trying to manually blast the sequence to see if its there!
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written 4 days ago by
A • 10
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... Thank you so much for the quick response! I guess one quick follow up question... As im not too familiar with the command line alignment tools, can a feature counts output (counts over exons) be passed to IsoformSwitchAnalyzeR. Would that suffice as a counts table?
Thanks again!
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written 8 days ago by
A • 10
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... Hi all,
Quick question, I was wondering if it possible to use directly, the output of a DEXSeq analysis and pass it in to analysis for isoformswitchanalyzeR? I have looked but cant find any information on this....
If so, which step can it be picked up from in the vignette?
Many thanks!
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written 8 days ago by
A • 10
• updated 8 days ago by
k.vitting.seerup • 30
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... apologies, align() output pasted correctly but posted as above, hope thats ok to read?
>ENA|AAF03373|AAF03373.1 Zoanthus sp. fluorescent protein FP538
ATGGCTCATTCAAAGCACGGTCTAAAAGAAGAAATGACAATGAAATACCACATGGAAGGG
TGCGTCAACGGACATAAATTTGTGATCACGGGCGAAGGCATTGGATATCCGTTCAAAGGG
AAACAGACTATTAATCTGTGTGT ...
written 8 days ago by
A • 10
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... aligh() output:
|Function : Read alignment (RNA-Seq) ||
|| Input file 1 : lane1_020_Ki_GTCTTGGC_L001_4198STDY7571463_R1.fastq.gz ||
|| Input file 2 : lane1_020_Ki_GTCTTGGC_L001_4198STDY7571463_R2.fastq.gz ||
|| Output file : alignResultsPE_1.BAM (BA ...
written 8 days ago by
A • 10
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... Submittign differenet replies because of word count: Build index output:
BuildIndex output:
Rsubread 1.32.1
//=========================== indexBuilder setting ===========================\
|| ||
|| Index name : reference_index ||
|| Index space : base-space ||
|| One block index : yes ||
|| R ...
written 8 days ago by
A • 10
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... Thank you!! please see below! Apologies this was not done initially: Please see information requested below including all outputs:
Session Info:
R version 3.5.1 (2018-07-02)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS High Sierra 10.13.4
Matrix products: default
BLAS: /Syst ...
written 8 days ago by
A • 10
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... Hi all,
I have recently posted an Rsubread featurecounts related question, but I have another one, based on a quality control analysis I would like to do:
I am attempting to identify a fluorescent reporter that is driven of a specific promoter in our cells of interest which we then sort (based o ...
written 9 days ago by
A • 10
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... thank you so much for your assistance! Really appreciate this, it has been so helpful!
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written 9 days ago by
A • 10
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