Moderator: ATpoint

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ATpoint41k
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Germany
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Posts by ATpoint

<prev • 6,097 results • page 1 of 610 • next >
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Comment: C: Sort Sam file by chromosome and position in python
... https://pysam.readthedocs.io/en/latest/api.html ...
written 1 hour ago by ATpoint41k
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Comment: C: Does the host of human coronaviruses (CoVs) genomes/sequences must be from human
... Don't waste your time with SE Biology, imho it is mostly a dumpster fire, quality of questions there is abysmal and I have the feeling therefore experienced users often do not even visit it to give good answers, so better post it in a suitable subReddit. This is no offense again SE in particular, ju ...
written 2 hours ago by ATpoint41k
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Comment: C: Sort Sam file by chromosome and position in python
... Check `pysam` rather than coming up with costom solutions, it is the swiss-army knife for sequencing data manipulation in python. ...
written 3 hours ago by ATpoint41k
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Comment: C: what is the meaning of "consensus mutation"?
... You received answers in many of your previous questions. Please take the time to upvote and accept helpful ones. ...
written 3 hours ago by ATpoint41k
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Comment: C: Is there a reason for less IgG occupancy around the promoters of highly expresse
... It is difficult to comment on anecdotal descriptions without seeing plots and having details on how you processed data. ...
written 4 hours ago by ATpoint41k
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Comment: C: error in sed usage
... That's not what I mean. Please give a representative example of the content of each variable so we know what it contains, not code, just a string what they contain. ...
written 23 hours ago by ATpoint41k
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Comment: C: how to perform two way ANOVA in SPSS with two fixed factors or independent varia
... This is not obviously related to bioinformatics. Please explain better or consider to ask over at CrossValidated after adding some details and clarity. ...
written 1 day ago by ATpoint41k
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Comment: C: Differential gene expression analysis of publicly available TCGA data - best pra
... I cannot find the thread from `support.bioconductor.org` right now but if memory serves the `DESeq2` developer at some point stated that rounding floats to integers is ok since the difference from a float to its nearest integer is tiny while true biological changes between groups are expected to be ...
written 2 days ago by ATpoint41k
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Comment: C: Analysis of RNA-seq data
... You are not getting my point. You can explicitely define an alternative hypothesis to test against differential expression the same way you test for differential expression in the standard workflow, but with this so-called `altHypothesis` you still take dispersion and baseMean into account and filte ...
written 2 days ago by ATpoint41k
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Comment: C: Batch effect correction
... As said, perfect confounding cannot be magically removed. sva and any other package obeys the rules of linear algebra. Answer is unfortunately no. I mean you can perform DE without batch correction and take the results for hypothesis generation, but be aware that this is not reliable. If you then fi ...
written 3 days ago by ATpoint41k

Latest awards to ATpoint

Teacher 16 hours ago, created an answer with at least 3 up-votes. For A: Get sequence by genomic coordinates in R
Scholar 16 hours ago, created an answer that has been accepted. For A: Get sequence by genomic coordinates in R
Appreciated 1 day ago, created a post with more than 5 votes. For A: Get sequence by genomic coordinates in R
Scholar 1 day ago, created an answer that has been accepted. For A: Get sequence by genomic coordinates in R
Appreciated 1 day ago, created a post with more than 5 votes. For A: Get sequence by genomic coordinates in R
Popular Question 3 days ago, created a question with more than 1,000 views. For [[ Please read before posting a question ::: How To Ask A Good Question ]]
Scholar 5 days ago, created an answer that has been accepted. For C: Does BWA mem work with uBAM file?
Prophet 6 days ago, created a post with more than 20 followers. For [[ Please read before posting a question ::: How To Ask A Good Question ]]
Scholar 6 days ago, created an answer that has been accepted. For A: Get sequence by genomic coordinates in R
Scholar 9 days ago, created an answer that has been accepted. For C: Does BWA mem work with uBAM file?
Teacher 11 days ago, created an answer with at least 3 up-votes. For A: Get sequence by genomic coordinates in R
Scholar 11 days ago, created an answer that has been accepted. For A: Get sequence by genomic coordinates in R
Scholar 12 days ago, created an answer that has been accepted. For C: Does BWA mem work with uBAM file?
Teacher 13 days ago, created an answer with at least 3 up-votes. For C: Does BWA mem work with uBAM file?
Scholar 14 days ago, created an answer that has been accepted. For C: Does BWA mem work with uBAM file?
Scholar 14 days ago, created an answer that has been accepted. For C: Does BWA mem work with uBAM file?
Appreciated 16 days ago, created a post with more than 5 votes. For A: Get sequence by genomic coordinates in R
Teacher 19 days ago, created an answer with at least 3 up-votes. For A: Get sequence by genomic coordinates in R
Scholar 22 days ago, created an answer that has been accepted. For C: Does BWA mem work with uBAM file?
Good Answer 22 days ago, created an answer that was upvoted at least 5 times. For A: Get sequence by genomic coordinates in R
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Teacher 22 days ago, created an answer with at least 3 up-votes. For C: Does BWA mem work with uBAM file?
Appreciated 27 days ago, created a post with more than 5 votes. For A: Get sequence by genomic coordinates in R
Teacher 29 days ago, created an answer with at least 3 up-votes. For C: Does BWA mem work with uBAM file?

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