Moderator: karl.stamm

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karl.stamm3.2k
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Posts by karl.stamm

<prev • 419 results • page 1 of 42 • next >
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Comment: C: Please decribe steps of getting these answers
... Try reading the textbook that accompanies your course. ...
written 19 days ago by karl.stamm3.2k
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Comment: C: File location vs path
... What are you talking about? "The object File" is about a vague as anything can be. ...
written 3 months ago by karl.stamm3.2k
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Comment: C: HeLa reference fasta
... According to the most comprehensive review of the HeLa genome I've seen, it's not a small change between it and hg19. It's a completely rearranged cell line. https://www.ncbi.nlm.nih.gov/pubmed/23550136 ...
written 4 months ago by karl.stamm3.2k
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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 4 months ago by karl.stamm3.2k
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Comment: C: To find Single Nucleotide polymorphism
... You forgot to ask a question. ...
written 4 months ago by karl.stamm3.2k
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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 5 months ago by karl.stamm3.2k
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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 months ago by karl.stamm3.2k
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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 5 months ago by karl.stamm3.2k
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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 5 months ago by karl.stamm3.2k
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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 5 months ago by karl.stamm3.2k

Latest awards to karl.stamm

Good Answer 11 days ago, created an answer that was upvoted at least 5 times. For A: Correlated standard errors in DESeq2
Appreciated 7 weeks ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Appreciated 4 months ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Commentator 7 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Scholar 7 months ago, created an answer that has been accepted. For A: Is LOESS normalization done to each sample independently?
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Commentator 14 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Commentator 15 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Appreciated 15 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
Teacher 18 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Scholar 18 months ago, created an answer that has been accepted. For A: Is LOESS normalization done to each sample independently?
Good Answer 18 months ago, created an answer that was upvoted at least 5 times. For A: Correlated standard errors in DESeq2
Appreciated 18 months ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Teacher 18 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: Why academic software is hard to install?
Appreciated 20 months ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Commentator 21 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Commentator 23 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Scholar 23 months ago, created an answer that has been accepted. For A: Is LOESS normalization done to each sample independently?
Teacher 23 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Teacher 2.0 years ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Appreciated 2.0 years ago, created a post with more than 5 votes. For C: Entropy Of Dna Sequences

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