User: raquelgarza95

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Posts by raquelgarza95

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Comment: C: Different mappings, different PCAs using TEtranscripts
... Thank you for your answer! ...
written 7 days ago by raquelgarza9540
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Comment: C: Different mappings, different PCAs using TEtranscripts
... Thank you for your answer. This is human data, and I am using the repeat information that TEtranscripts offer for other analysis. I was expecting similar results from the two approaches and was wondering if there was a reason behind it. Even if the software was not specifically designed to only wor ...
written 8 days ago by raquelgarza9540
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Comment: C: Different mappings, different PCAs using TEtranscripts
... The unique mapping is made with transcripts (79,000), TEtranscripts outputs gene read counts so it is less (24,333 genes). ...
written 9 days ago by raquelgarza9540
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Different mappings, different PCAs using TEtranscripts
... Hello, I made two PCA plots from two types of mappings towards the same genome. In one of them, I allow the reads to just map to one loci, and in the other one I let them map 100 times. After that I do transcript assembly with StringTie in the uniquely mapped reads, and i use the software TEtransc ...
tetranscripts pca written 9 days ago by raquelgarza9540
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Comment: C: StringTie strandness of library in dUTP protocol
... Your figures are very helpful, thank you. ...
written 14 days ago by raquelgarza9540
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StringTie strandness of library in dUTP protocol
... Can somebody explain to me why StringTie calls fr-firststrand to a library preparation that is prepared by dUTP protocol? dUTP protocol keeps the reverse strand of the amplified cDNA, right? So if it is the reverse strand, wouldn't it make more sense to call it secondstrand? Maybe the answer is "b ...
rnaseq libraryprep stringtie dutp written 15 days ago by raquelgarza9540 • updated 14 days ago by Juke-342.1k
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Comment: C: DESeq interactions: What genes that are different between two experiments affect
... Thank you! This was very helpful. ...
written 28 days ago by raquelgarza9540
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DESeq interactions: What genes that are different between two experiments affects the conditions
... Hello! I'm super noob on DESeq interactions so sorry in advance if this question is duplicated. I just need to ask directly to see if I understand correctly. I have two experiments performed in young and old mice. I want to test in both for knock down vs control of a certain gene. I want to make ...
dea interactions deseq2 rna-seq written 28 days ago by raquelgarza9540 • updated 28 days ago by swbarnes25.2k
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Comment: C: Comparing Two Bam Files Obtained From The Same Files And The Exact Settings
... Is there a way of setting a seed on this?? ...
written 6 weeks ago by raquelgarza9540
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Comment: C: StringTie giving different results - same dataset
... Do you know how to set a seed by any chance? ...
written 6 weeks ago by raquelgarza9540

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Student 6 weeks ago, asked a question with at least 3 up-votes. For StringTie giving different results - same dataset

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