User: selplat21

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selplat2120
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Posts by selplat21

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Comment: C: Linear Model Loop in R
... You are an amazing human, thank you so much. This is perfect. ...
written 8 days ago by selplat2120
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Comment: C: Linear Model Loop in R
... So here was my rationale here: Models <- list(FGm, ECm, BWm, Mm, BDm, Cm, WCm, FCm, DPC1m,DPC2m,DPC3m,DPC4m,DPC5m,DPC6m,DPC7m, DPC8m,DPC9m,DPC10m,SPC1m,SPC2m,SPC3m,SPC4m, SPC5m,SPC6m,SPC7m,SPC8m,SPC9m,SPC10m, Ipom, ...
written 8 days ago by selplat2120
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Comment: C: Linear Model Loop in R
... That is helpful, thank you! The problem here is that the following concatenated list is in character format, but I want each item in this list to be treated as an lm type object. So, not sure how to just get these read in as lm objects. Models <- c('FGm', 'ECm', 'BWm', 'Mm', 'BDm', 'Cm', 'WC ...
written 8 days ago by selplat2120
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Linear Model Loop in R
... Hello, I have a list of linear model outputs in R: Models <- c('FGm', 'ECm', 'BWm', 'Mm', 'BDm', 'Cm', 'WCm', 'FCm', 'DPC1m','DPC2m','DPC3m','DPC4m','DPC5m','DPC6m','DPC7m', 'DPC8m','DPC9m','DPC10m','SPC1m','SPC2m','SPC3m','SPC4m', ...
R bioinformatics written 8 days ago by selplat2120 • updated 8 days ago by rpolicastro2.3k
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Imputation on low coverage samples
... Hi all, Does anyone have experience using BEAGLE on low coverage samples. I have about 500 individuals with ~3x genome-wide coverage and am trying to figure out the best arguments to use in BEAGLE to impute missing data. Thank you. ...
popgen next-gen imputation sequencing written 17 days ago by selplat2120
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Comment: C: Summing Chromosome Sizes
... Thank you so much that answers my question! ...
written 27 days ago by selplat2120
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Summing Chromosome Sizes
... File1_Col1 <- c("Chr1", "Chr2", "Chr3", "Chr4", "Chr5") File1_Col2 <- c(10000, 8000, 5000, 2000, 500) File1 <- data.frame(File1_Col1, File1_Col2) File2_Col1 <- c("Chr1", "Chr1", "Chr1", "Chr2", "Chr2", "Chr2","Chr3", "Chr3", "Chr3" ,"Chr4", "Chr4", "Ch ...
R sequencing written 28 days ago by selplat2120 • updated 27 days ago by rpolicastro2.3k
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RepeatModeler - Everything works except LTR Harvest
... Hello, I have been running RepeatModeler on my de novo assembled genome. I have run it multiple times and it runs for about 4-5 days and completes with the expected consensi.fa.classified output file. However, the LTR run, which should generate another fasta in a separate folder, outputs the follow ...
genome assembly next-gen sequencing written 4 weeks ago by selplat2120
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Comment: C: Making disjoint chromosomal sites contiguous with awk
... I am simply just trying to add the value of file 2, column 2 to each site of file 1 column 2, but the value being added to file 1 is from the preceding chromosome. That being said, Chr1 would be ignored. Any additional chromosomes would have to add the chromosome size of all preceding chromosomes to ...
written 5 weeks ago by selplat2120
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Comment: C: Making disjoint chromosomal sites contiguous with awk
... I apologize, one of the sites was accidentally duplicated there. I edited it. File 1, Column 1 = Chromosome File 1, Column 2 = Site Example: Chr1 1 Chr1 3 Chr1 5 ... Chr2 3 Chr2 6 Chr2 7 ... Chr3 4 Chr3 6 Chr3 8 ... Fil ...
written 5 weeks ago by selplat2120

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