Moderator: karl.stamm

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karl.stamm3.3k
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Posts by karl.stamm

<prev • 444 results • page 1 of 45 • next >
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Comment: C: Neural networks feature importance
... Multiple outcomes are useful if the classification is not binary. Perhaps there are two dimensions being evaluated simultaneously. Multiple classification can use as many outputs as classes in a "one-hot" encoding. If the training algorithm needs a single value for goodness of fit, the multiple o ...
written 2 days ago by karl.stamm3.3k
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Answer: A: Neural networks feature importance
... You should be able to use your preferred algorithm to evaluate your network if you customize it to suit the structure. Either the algorithm needs adjustment or the network structure. Typically one output neuron is sufficient to classify something to binary, since it will read 0 or -1 for FALSE, an ...
written 2 days ago by karl.stamm3.3k
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Comment: C: Workstation : More RAM or Faster RAM
... If I had enough RAM I would then like faster RAM. ...
written 6 days ago by karl.stamm3.3k
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Comment: C: Workstation : More RAM or Faster RAM
... Part of the skill in using cloud services is finding how to reduce the bandwidth required. ...
written 6 days ago by karl.stamm3.3k
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Comment: C: What is the fastest protein structure alignment?
... The fastest won't be the most accurate. Define your metrics, how much accuracy is necessary? ...
written 9 days ago by karl.stamm3.3k
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Comment: C: How to "simulate" a qPCR reaction in silico?
... It's a complicated problem, and will depend on the environmental context: I'm interested in a tool which can tell me if a qPCR amplification will "go well" when the sample is a blood extraction from Model Organism X. We may have to define "go well" and specify the amplification parameters. ...
written 4 weeks ago by karl.stamm3.3k
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Comment: C: Methylation analysis request for help
... I searched PLOS One (because their articles are freely downloadable) for 'methylation' and found this article associating methylation patterns to exon usage. Read the methods section carefully and it should help you get a grasp of what to do. https://journals.plos.org/plosone/article?id=10.1371/jo ...
written 5 weeks ago by karl.stamm3.3k
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Comment: C: Methylation analysis request for help
... You've asked too many questions, and the situation summarizes to "do my job for me". You need to figure out what you want to do, and it will become a series of small steps, some of which you can solve and others you can ask more pointed questions. How to make a picture, or how to perform a calcula ...
written 5 weeks ago by karl.stamm3.3k
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Comment: C: Why learn programming in bioinformatics?
... I think it's unfair to require the answer in an hour the first time, and a minute on subsequent runs. We only need the answer "this week". So let him try to perform the task by hand. It will take several days, and when he's done, it will have to be double-checked, because no repetitive task a huma ...
written 6 weeks ago by karl.stamm3.3k
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Comment: C: Pseudogenes in bacteria genome
... I would disagree with your definition of a pseudogene. I think a pseudogene is when one is duplicated and also deactivated through mutation. It may be lost in some future generation, or conserved for structural reasons, but it should not generate proteins. Generating a protein would promote it to a ...
written 7 weeks ago by karl.stamm3.3k

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Commentator 7 weeks ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Popular Question 6 months ago, created a question with more than 1,000 views. For Can I run VEP on a VCF twice?
Good Answer 10 months ago, created an answer that was upvoted at least 5 times. For A: Correlated standard errors in DESeq2
Good Answer 12 months ago, created an answer that was upvoted at least 5 times. For A: Correlated standard errors in DESeq2
Appreciated 13 months ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Teacher 15 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?
Commentator 19 months ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Scholar 20 months ago, created an answer that has been accepted. For A: Is LOESS normalization done to each sample independently?
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Teacher 22 months ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Commentator 2.2 years ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Commentator 2.2 years ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Appreciated 2.3 years ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Commentator 2.4 years ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Scholar 2.5 years ago, created an answer that has been accepted. For A: Is LOESS normalization done to each sample independently?
Teacher 2.5 years ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Good Answer 2.5 years ago, created an answer that was upvoted at least 5 times. For A: Correlated standard errors in DESeq2
Appreciated 2.5 years ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Teacher 2.5 years ago, created an answer with at least 3 up-votes. For A: multithreading in psiblast
Appreciated 2.7 years ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Appreciated 2.7 years ago, created a post with more than 5 votes. For C: Why academic software is hard to install?
Commentator 2.7 years ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq
Commentator 2.9 years ago, created a comment with at least 3 up-votes. For C: Pathway Graphs for gene set from RNA-seq

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