User: yueli7

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yueli7190
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Posts by yueli7

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Comment: C: remove batch effect of SILAC protein data
... Hello Kevin Blighe, Thank you so much for your suggestion! Thank you! Best, Yue ...
written 29 days ago by yueli7190
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remove batch effect of SILAC protein data
... Hello, I have SILAC protein data which comes from three different days and want to remove batch effect of these data, 1. `knn` function of `impute` package to impute missing expression values. 2. `na.omit` to delete all the NA value. None of them is work. Are there any methods that can remov ...
gene written 4 weeks ago by yueli7190
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Comment: C: Error: Can't subset columns that don't exist. x Column `PEP` doesn't exist.
... @brunobsouzaa Hello brunobsouzaa, Thank you so much for your comments! I think the error is the `x Column PEP doesn't exist.` Is that correct? It is very strange to me that it works well on demo data, but not work well on my own data. Thank you in advance for your great help! Best, Yue ...
written 7 weeks ago by yueli7190
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Error: Can't subset columns that don't exist. x Column `PEP` doesn't exist.
... Hello, I worked on R environment of `parsemsf` package. I have no idea of this error. Thank you in advance for your great help! Best, Yue >library(parsemsf) >area_table <- make_area_table("LD-CS-150113_OstromR_OR_AC2_enriched.msf") Error: Can't subset columns that don't ...
software error written 7 weeks ago by yueli7190 • updated 7 weeks ago by brunobsouzaa490
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Comment: C: Error in grid.Call(C_stringMetric, as.graphicsAnnot(x$label))
... Hello _r_am, Thank yo so much for your comments! Thank you again! Best, Yue > ggplot2::ggsave(filename="protein.pdf", plot=pep_plot) Saving 7 x 7 in image > ggplot2::ggsave(filename="protein.png", plot=pep_plot) Saving 7 x 7 in image ...
written 7 weeks ago by yueli7190
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Comment: C: Error in UseMethod("select_") : no applicable method for 'select_' applied to
... Hello e.rempel, Thank you for your comments! I think It also can work on `R version 3.6.3, dplyr_0.8.2 , dbplyr_1.3.0` . Thank you again! > library(parsemsf) > area_table <- make_area_table(parsemsf_example("test_db.msf")) > knitr::kable(head(area_table)) | pept ...
written 7 weeks ago by yueli7190
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Comment: C: Error in grid.Call(C_stringMetric, as.graphicsAnnot(x$label))
... Hello _r_am, Thank you so much for your great help! Thank you again and really apprectiated! Best, Yue I tried to use `ggsave` to save the plot. > pep_plot <- ggplot(peptide_summary, + aes(x = start, xend = end, y = spectral_count, yend = spectral_count)) + + geom_se ...
written 7 weeks ago by yueli7190
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Error in grid.Call(C_stringMetric, as.graphicsAnnot(x$label))
... Hello, I tired to use `ggplot`. I think there is something wrong with the font, but I have no idea. Thank you in advance for great help! Best, Yue > pep_plot <- ggplot(peptide_summary, + aes(x = start, xend = end, y = spectral_count, yend = spectral_count)) + + geom ...
software error written 7 weeks ago by yueli7190
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Comment: A: Error in UseMethod("select_") : no applicable method for 'select_' applied to
... R version 3.6.1, dplyr_0.8.2, parsemsf_0.1.1, dbplyr_1.3.0 > library(parsemsf) > area_table <- make_area_table(parsemsf_example("test_db.msf")) > knitr::kable(head(area_table)) | peptide_id| spectrum_id|protein_desc |sequence | area| mass| m ...
written 7 weeks ago by yueli7190
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Error in UseMethod("select_") : no applicable method for 'select_' applied to an object of class "c('tbl_SQLiteConnection', 'tbl_dbi', 'tbl_sql', 'tbl_lazy', 'tbl')"
... Hello, I tried to use R package of `parsemsf`. I have no idea of this kinds of error. Thank you in advance for your great help! Best, Yue ``` > library(parsemsf) > area_table <- make_area_table(parsemsf_example("test_db.msf")) Error in UseMethod("select_") : no appli ...
software error written 7 weeks ago by yueli7190 • updated 29 days ago by Biostar ♦♦ 20

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