Moderator: Santosh Anand

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Santosh Anand4.6k
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Posts by Santosh Anand

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Comment: C: Error in as.vector(x) : no method for coercing this S4 class to a vector
... Hello priyankaraina10! We believe that this post does not fit the main topic of this site. Not a bioinformatics Q and cross-posted on SE https://bioinformatics.stackexchange.com/questions/7010/error-in-as-vectorx-no-method-for-coercing-this-s4-class-to-a-vector For this reason we have closed you ...
written 4 days ago by Santosh Anand4.6k
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Comment: C: Error in as.vector(x) : no method for coercing this S4 class to a vector
... Do you understand the steps that you are doing? Your error should be in "*mdat <- do.call(cbind, dat)*" rather than the following step of *write.table*. Hint: what does *class(rse_gene)* give you? if it not a vector, you can't run your *cbind* with *do.call* because *cbind* expects a vector (or ...
written 4 days ago by Santosh Anand4.6k
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Comment: C: Error with merge_result with dataframes using clusterprofiler
... So you got the answer - save them as original *enrichmentresult* object in a variable without coercing them as *data.frame* ...
written 5 days ago by Santosh Anand4.6k
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Comment: C: mRNA in 40S ribosomal subunit
... Please EDIT your Q and delete this answer. You may edit your question by following the edit link at the end of the Question above. ...
written 5 days ago by Santosh Anand4.6k
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Comment: C: Error with merge_result with dataframes using clusterprofiler
... How did you obtain A4 & B4? What does class(A4) and class(B4) return? ...
written 5 days ago by Santosh Anand4.6k
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Comment: C: How to merging multiple GSEs with different GPLs?
... Could you explain what are you trying to do? GPLs describe different GEO platform (Sequencing, array or even RT-PCR) and unless they are measuring similar things, you can not merge them. On the top of that, you need to care about different normalization and overall normalization of merged samples. ...
written 5 days ago by Santosh Anand4.6k
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Comment: C: how to go from aligning forward when analyzing whole exome sequencing
... Did you check v4 best practices? What specifically is troubling you? https://software.broadinstitute.org/gatk/best-practices/workflow ...
written 8 days ago by Santosh Anand4.6k
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Answer: A: can not obtain DESeq2 results
... The answer is right in front of you: > couldn't find results. you should first run DESeq() You haven't run the `DESeq()` function yet, which is needed to create the result. Please follow DESeq2 tutorial https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html ...
written 9 days ago by Santosh Anand4.6k
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Answer: C: How to collect the phastCons and phyloP data from Ensembl
... You may easily get them from UCSC (Google it). The reference genome assembly doesn't change between different sites - so it will give the same info. ...
written 9 days ago by Santosh Anand4.6k
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Comment: C: bcl2fastq on Mac
... Or..... the old school way - run Linux inside a [VM][1] [1]: https://www.virtualbox.org/wiki/Downloads ...
written 10 days ago by Santosh Anand4.6k

Latest awards to Santosh Anand

Teacher 1 day ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 12 days ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 12 days ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Commentator 26 days ago, created a comment with at least 3 up-votes. For C: Merge two BAM files with different but overlapping reference sequences?
Commentator 5 weeks ago, created a comment with at least 3 up-votes. For C: Merge two BAM files with different but overlapping reference sequences?
Scholar 5 weeks ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Commentator 9 weeks ago, created a comment with at least 3 up-votes. For C: Merge two BAM files with different but overlapping reference sequences?
Scholar 12 weeks ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 12 weeks ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 3 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 3 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Popular Question 3 months ago, created a question with more than 1,000 views. For chart title in plotly (R)
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: Merge two BAM files with different but overlapping reference sequences?
Teacher 4 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 5 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Appreciated 5 months ago, created a post with more than 5 votes. For A: How to import huge .csv files in R studio?
Scholar 5 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 5 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Good Answer 6 months ago, created an answer that was upvoted at least 5 times. For A: How to import huge .csv files in R studio?
Popular Question 6 months ago, created a question with more than 1,000 views. For chart title in plotly (R)
Teacher 6 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Commentator 6 months ago, created a comment with at least 3 up-votes. For C: Merge two BAM files with different but overlapping reference sequences?
Scholar 6 months ago, created an answer that has been accepted. For A: How can we download all TSA and WGS from NCBI Trace by taxon programmatically?
Scholar 6 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Appreciated 6 months ago, created a post with more than 5 votes. For A: How to recover treated/control count from DESeq2 output

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