Moderator: karl.stamm

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karl.stamm3.1k
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Posts by karl.stamm

<prev • 416 results • page 1 of 42 • next >
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Comment: C: How to convince the replication in RNAseq
... You need to find out the source of the RNA. The question of biological replicates or technical replicates is very important and due to the source material. Where did the (each of six) RNA come from? Your collaborators will know if they are the same cells or different. Pearson correlation is irrele ...
written 3 days ago by karl.stamm3.1k
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Comment: C: To find Single Nucleotide polymorphism
... You forgot to ask a question. ...
written 27 days ago by karl.stamm3.1k
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Comment: C: NCBI BLAST on AWS
... I don't know a lot of python, but is there a chance "while i < num_rows + 1" is doing the < before the +1, and converting while(false+1) into an infinite loop? Anyway, why not log into the remote instance with a terminal and look at what it's doing instead of using any local python at all? ...
written 4 weeks ago by karl.stamm3.1k
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Comment: C: Merging two datasets related to protiens and calculating the molec weight
... You're doing an awful lot of different thing at the same time. To be effective in problem solving we ahve to break it down to smaller tasks. Find where the problem really lies. Is this a coding/variables problem, or an algorithmic problem? R can be funny with variable scoping, so don't try to do ...
written 5 weeks ago by karl.stamm3.1k
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Comment: C: Survey for VEP users
... That's a good idea. Thanks for running a survey. My usage of VEP might be unusual, and I want the team to know researchers are relying on consistent inputs and outputs. ...
written 6 weeks ago by karl.stamm3.1k
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Answer: A: Converting TPM to FPKM
... Any conversion will have some error to it. Theoretically, the math is a quick conversion, but realistically, both of your data sets are produced by different tools with different biases. The conversion is not going to be correct. Better to try to use both sorts of data, knowing they are simply diffe ...
written 7 weeks ago by karl.stamm3.1k
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Comment: C: Why does methylation data have bimodal distribution?
... Okay, great. So what is a methylation beta value? Beta is a generic parameter that means something different in each situation, but in your case it might be a probe intensity ratio, and the bi-modal indicates "off" and "on" signals. ...
written 8 weeks ago by karl.stamm3.1k
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Comment: C: Why does methylation data have bimodal distribution?
... LABEL YOUR AXES. WE CANT TELL WHAT YOURE TALKING ABOUT IF THE X AXIS IS BLANK ...
written 8 weeks ago by karl.stamm3.1k
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Comment: C: R multiple parameters
... Oh that's really nice! ...
written 9 weeks ago by karl.stamm3.1k
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Comment: C: R multiple parameters
... This is a limitation of the way vioplot is written. I remember years ago editing its source to accept a list of vectors. Sorry I don't have it to share, I just remember there was no function you're looking for. In plain R you could have multiple single plots with par(mfrow) and a loop. Because it ac ...
written 9 weeks ago by karl.stamm3.1k

Latest awards to karl.stamm

Appreciated 23 days ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Scholar 3 months ago, created an answer that has been accepted. For A: Is LOESS normalization done to each sample independently?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Commentator 10 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Commentator 11 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Appreciated 11 months ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Commentator 13 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Scholar 14 months ago, created an answer that has been accepted. For A: Is LOESS normalization done to each sample independently?
Teacher 14 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Good Answer 14 months ago, created an answer that was upvoted at least 5 times. For A: Correlated standard errors in DESeq2
Appreciated 14 months ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Teacher 14 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Appreciated 16 months ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Appreciated 16 months ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Commentator 17 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Commentator 18 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Scholar 19 months ago, created an answer that has been accepted. For A: Is LOESS normalization done to each sample independently?
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Appreciated 20 months ago, created a post with more than 5 votes. For C: Entropy Of Dna Sequences
Commentator 20 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Voter 20 months ago, voted more than 100 times.
Scholar 20 months ago, created an answer that has been accepted. For A: Is LOESS normalization done to each sample independently?

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