Tag: .csv

github – Source control or Project folder connections with Jupyter

I need help in deciding the easiest approach to centralized the storage of all project-related files such as data extracts and python code which can then be accessed and executed into JypterHub without manually uploading into the JypterHub folder Can I store the updated version of the .ipynb file and…

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Generating multiple heatmaps with heatmap3 and lapply

Generating multiple heatmaps with heatmap3 and lapply 1 Hey everybody I have a series of .csv files from RNA-seq data stored in a list and I am trying to produce a heatmap for each of them by using heatmap3 function combined with lapply in R, after first converting each of…

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Answer: Pathogen-drug network

Search google for “antibacterial **drug database**” you could change antibacterial with antimicrobial or other relevant terms. If you can find a database/tsv/csv file you could extract the information you need from it. I think this is the best one I found for antivirals: www.viprbrc.org/brc/antiviralDrug_search.spg?method=ShowCleanSearch&decorator=picorna_entero ———- This one might give you…

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up-down regulated using log2FC

up-down regulated using log2FC 0 Hello, I used Data Wrangling in R to write commands to find the number of FC>1 and FC<1. But R recognizes the column “log2FC” as null. library(tidyverse) library(lubridate) library(stringr) targets <- read.csv(“FilteredGenes(STD-Met-Cin).csv”) glimpse(targets) targets <- tibble(‘log2FC ‘=targets$log2FC) glimpse(targets) unique(targets$ log2FC) summary (targets) targets<- tibble(‘log2FC’=targets$ log2FC)…

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change name several files

My goal is to remove the second “column”, so the 10 in the first case, the 87 in the second and the 345 in the third. This statement is confusing. On one hand, you are (OP) saying you want to remove second column and on the other hand, you are…

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How to export count data as .csv file in Seurat

How to export count data as .csv file in Seurat 1 Hi, I’m trying to export the log normalized count data from Seurat in to a .csv file and get the following error: library (Seurat) fib.data <- subset(onlyharmonfib, subset = nFeature_RNA > 200 & nFeature_RNA < 2500 & percent.mito <5)…

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