User: Martombo

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Martombo2.3k
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Posts by Martombo

<prev • 285 results • page 1 of 29 • next >
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Comment: C: Read count difference between STAR and Bowtie
... why don't you use a program designed to align and count miRNA reads like miRdeep2 for example? ...
written 6 days ago by Martombo2.3k
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Comment: C: STAR Splice Junctions normalization
... I would add that you also need to normalize by gene expression. Otherwise you'll see increase in all splicing events of an upregulated gene. A common thing to do is to normalize by reads across an exon for example, by computing the PSI (percent spliced in). ...
written 6 days ago by Martombo2.3k
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Answer: A: RNA-binding motifs matching
... I think this is done automatically, if you look for TATC you'll find GATA factors. ...
written 20 days ago by Martombo2.3k
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Answer: A: comparing two ratios in RNASeq data
... Hi, see this thread [here][1] [1]: https://support.bioconductor.org/p/61509/ ...
written 4 weeks ago by Martombo2.3k
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Comment: C: R read.table() saying line does not have correct number of elements - when I che
... It seems that the hash on column 29 was causing read.table to stop reading the line. Could that be the case? ...
written 8 weeks ago by Martombo2.3k
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Comment: C: R read.table() saying line does not have correct number of elements - when I che
... You're right, I don't know why mine wasn't displaying all of them ...
written 8 weeks ago by Martombo2.3k
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Answer: A: Quantifying repetitive elements in RNA-seqs
... If you're quantifying genetic elements that are present in multiple copies in the genome, with little variation, you can use a rather standard approach: collect representative sequences you want to study and map and count your reads against that (allowing for a higher number of mismatches than usual ...
written 8 weeks ago by Martombo2.3k
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Answer: C: DESEQ2 control vs multiple treatment
... you can specify the samples to test in the function results() results(dds, contrast = c("condition", "Drug1", "Control")) "condition" here is the name of the factor in your colData object. Once you have the individual results for each drug you can compare the log2FC you get and the number of s ...
written 9 weeks ago by Martombo2.3k
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Comment: C: Weird error in R
... is there no problem with your internet connection? ...
written 9 weeks ago by Martombo2.3k
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Comment: C: Find out the mutation type from TCGA data
... Isn't this copy number data? ...
written 10 weeks ago by Martombo2.3k

Latest awards to Martombo

Student 5 weeks ago, asked a question with at least 3 up-votes. For Sjdboverhang Option In Star
Popular Question 7 weeks ago, created a question with more than 1,000 views. For human Natural Antisense Transcript database
Commentator 10 weeks ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Scholar 10 months ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Scholar 10 months ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Scholar 11 months ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Popular Question 12 months ago, created a question with more than 1,000 views. For different output format in Clustal-Omega
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Scholar 12 months ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Appreciated 17 months ago, created a post with more than 5 votes. For A: Tophat --max-multihits option
Commentator 19 months ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Great Question 19 months ago, created a question with more than 5,000 views. For Sjdboverhang Option In Star
Appreciated 21 months ago, created a post with more than 5 votes. For A: Tophat --max-multihits option
Teacher 22 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Teacher 23 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Popular Question 2.4 years ago, created a question with more than 1,000 views. For different output format in Clustal-Omega
Teacher 2.5 years ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Popular Question 2.6 years ago, created a question with more than 1,000 views. For misc_RNA in Ensembl
Teacher 2.9 years ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction

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