Last updated: 2025-07-15

Checks: 2 0

Knit directory: frascolla_chemoresistance/

This reproducible R Markdown analysis was created with workflowr (version 1.7.1). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.

R Markdown file: up-to-date

Great! Since the R Markdown file has been committed to the Git repository, you know the exact version of the code that produced these results.

Repository version: 57ef6f7

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The results in this page were generated with repository version 57ef6f7. See the Past versions tab to see a history of the changes made to the R Markdown and HTML files.

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Untracked files:
    Untracked:  .DS_Store
    Untracked:  data/samples_info_sh1plus2_vs_scr.tsv
    Untracked:  output/deg_shIFI6_Day0_vs_shSCR_Day0.tsv
    Untracked:  output/deg_shIFI6_Day1_vs_shSCR_Day0.tsv
    Untracked:  output/deg_shIFI6_Day2_vs_shSCR_Day0.tsv
    Untracked:  output/deg_shIFI6_Day3_vs_shSCR_Day0.tsv
    Untracked:  output/deg_shIFI6_Day4_vs_shSCR_Day0.tsv
    Untracked:  output/deg_shIFI6_Day5_vs_shSCR_Day0.tsv
    Untracked:  output/deg_shSCR_Day2_vs_shSCR_Day0.tsv
    Untracked:  output/deg_shSCR_Day3_vs_shSCR_Day0.tsv
    Untracked:  output/deg_shSCR_Day4_vs_shSCR_Day0.tsv
    Untracked:  src/a
    Untracked:  src/genes2filter_ensemblid.csv
    Untracked:  src/genes2filter_symbol.csv

Unstaged changes:
    Modified:   output/deg_shIFI6_1_Day1_vs_shSCR_Day1.tsv
    Modified:   output/deg_shIFI6_1_Day2_vs_shSCR_Day2.tsv
    Modified:   output/deg_shIFI6_1_Day3_vs_shSCR_Day3.tsv
    Modified:   output/deg_shIFI6_1_Day4_vs_shSCR_Day4.tsv
    Modified:   output/deg_shIFI6_1_Day5_vs_shSCR_Day5.tsv
    Modified:   output/deg_shIFI6_2_Day1_vs_shSCR_Day1.tsv
    Modified:   output/deg_shIFI6_2_Day2_vs_shSCR_Day2.tsv
    Modified:   output/deg_shIFI6_2_Day3_vs_shSCR_Day3.tsv
    Modified:   output/deg_shIFI6_2_Day4_vs_shSCR_Day4.tsv
    Modified:   output/deg_shIFI6_2_Day5_vs_shSCR_Day5.tsv
    Modified:   output/deg_shIFI6_Day1_vs_shIFI6_Day0.tsv
    Modified:   output/deg_shIFI6_Day1_vs_shSCR_Day1.tsv
    Modified:   output/deg_shIFI6_Day2_vs_shIFI6_Day0.tsv
    Modified:   output/deg_shIFI6_Day2_vs_shSCR_Day2.tsv
    Modified:   output/deg_shIFI6_Day3_vs_shIFI6_Day0.tsv
    Modified:   output/deg_shIFI6_Day3_vs_shSCR_Day3.tsv
    Modified:   output/deg_shIFI6_Day4_vs_shIFI6_Day0.tsv
    Modified:   output/deg_shIFI6_Day4_vs_shSCR_Day4.tsv
    Modified:   output/deg_shIFI6_Day5_vs_shIFI6_Day0.tsv
    Modified:   output/deg_shIFI6_Day5_vs_shSCR_Day5.tsv
    Modified:   output/deg_shSCR_Day5_vs_shSCR_Day0.tsv
    Modified:   src/__utils_rna_seq_functions.R

Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.

These are the previous versions of the repository in which changes were made to the R Markdown (analysis/index.Rmd) and HTML (docs/index.html) files. If you’ve configured a remote Git repository (see ?wflow_git_remote), click on the hyperlinks in the table below to view the files as they were in that past version.

File Version Author Date Message
Rmd 57ef6f7 Mariani_Gianluca_Alessio 2025-07-15 Redone analysis with ribosomal genes filter
html 80a76c2 Mariani_Gianluca_Alessio 2025-07-11 Build site.
Rmd 7eec999 Mariani_Gianluca_Alessio 2025-07-11 Updated index
html 3cabe3c Yinxiu Zhan 2025-07-10 Build site.
Rmd c0a0612 Yinxiu Zhan 2025-07-09 :sparkles: Release first version
html f33d1f1 Yinxiu Zhan 2025-07-09 Build site.

New label! The ‘new’ label denotes the most recently delivered report(s).

This website contains RNAseq data analyses for the chemoresistance project.

Bulk RNAseq data analysis

pooled shRNA vs scramble at day X

shRNA day X vs day 0

scramble day X vs day 0

pooled shRNA vs scramble at day 0