User: lokraj2003

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lokraj200390
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lokraj
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Posts by lokraj2003

<prev • 43 results • page 1 of 5 • next >
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Using R Studio on Cloud
... I don't know if it is the right platform to ask this question. But, I could not find any better place than this to ask this question. I am trying to do some single-cell analysis for a group project. I have about 500 MB of data (count matrixes). I am not able to run any analysis on my PC where I ha ...
R rna-seq rstudio single cell written 5 months ago by lokraj200390 • updated 5 months ago by zx87549.7k
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Comment: C: Extracting strings from the fasta header
... Awesome. It works. Actually I have my gene names in the column of a data frame, so this is perfect. Would you mind telling me briefly what these regular expressions are doing? Thanks again for taking your time! ...
written 5 months ago by lokraj200390
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Comment: C: Extracting strings from the fasta header
... This works. Since, I have all the names in a data frame, the solution provided by @Alex Nemelov suits my need. Thank you! ...
written 5 months ago by lokraj200390
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Extracting strings from the fasta header
... I want to extract **gene name** , **gene start position** and **gene stop position** from the fasta header of the fasta file. I have tried to extract based on the position but those locations are not consistent. Is there any other way to extract them ? This is what I have tried so far. ...
fasta R string written 5 months ago by lokraj200390 • updated 5 months ago by Alex Nesmelov170
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Comment: C: Multiple test correction in Hyphy Analysis ?
... Thanks Brice. I did not split the genome. So, 1250 amino acids was one gene. So, I don't need to adjust my p -value ? Just to confirm I understood your point correctly. ...
written 14 months ago by lokraj200390
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Multiple test correction in Hyphy Analysis ?
... I did selection pressure analysis on viral genomes using MEME, SLAC and FUBAR on Datamonkey server. I am using p value < 0.05 for MEME and SLAC. Do I have to do any type of multiple test correction on the p-value given by MEME and SLAC ? How can I do Bonferroni Test if I have 85 sequences each wi ...
hyphy selection pressure datamonkey bonferroni written 14 months ago by lokraj200390 • updated 14 months ago by Brice Sarver3.5k
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Comment: C: Nucleotide to amino acid conversion of multiple sequences
... Actually it works, but then parsing output became tedious. Thinking of a way to parse the output. ...
written 16 months ago by lokraj200390
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Comment: C: Nucleotide to amino acid conversion of multiple sequences
... I am going to do selection pressure analysis. So, I will have to do multiple sequence alignment before I could actually do selection pressure analysis. ...
written 16 months ago by lokraj200390
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Nucleotide to amino acid conversion of multiple sequences
... I have 220 nucleotide sequences. They are around 7000 bp and each of them should translate into one protein of around 2100 amino acids. There are some functions already available in R that can convert nucleotide sequence to amino acid sequence. But, these available functions like `Translate` in `seq ...
biocondutor bippyton protein dna written 16 months ago by lokraj200390 • updated 16 months ago by Mensur Dlakic7.2k
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Creating SingleCellExperiment class from scratch !
... I am trying to learn single cell RNA-Seq data analysis. Right now I am following Seurat and Monocle documentation. I am aware of the fact that we have to create a single cell experiment object, which basically acts as a container for the scRNA data. But, I want make one these container from scratch ...
bioconductor monocle scrna seurat written 17 months ago by lokraj200390

Latest awards to lokraj2003

Popular Question 20 days ago, created a question with more than 1,000 views. For Creating SingleCellExperiment class from scratch !
Popular Question 5 months ago, created a question with more than 1,000 views. For Creating SingleCellExperiment class from scratch !
Popular Question 8 months ago, created a question with more than 1,000 views. For Making row and column names visible on heatmap.
Popular Question 11 months ago, created a question with more than 1,000 views. For Making row and column names visible on heatmap.
Popular Question 11 months ago, created a question with more than 1,000 views. For qPCR Ct value to the genome copy number
Popular Question 13 months ago, created a question with more than 1,000 views. For How to create a nexus file for BEAST ?
Popular Question 13 months ago, created a question with more than 1,000 views. For qPCR Ct value to the genome copy number
Popular Question 18 months ago, created a question with more than 1,000 views. For qPCR Ct value to the genome copy number
Popular Question 19 months ago, created a question with more than 1,000 views. For Annotation with Prokka or RAST.
Scholar 19 months ago, created an answer that has been accepted. For A: how to appropriately export datasets from R studio in an appropriate style?
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: how to appropriately export datasets from R studio in an appropriate style?
Popular Question 22 months ago, created a question with more than 1,000 views. For Annotation with Prokka or RAST.

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