Osteo_atlas/.gitignore at main · kidcancerlab/Osteo_atlas · GitHub

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# History files
.Rhistory
.Rapp.history
.err
.out

# Session Data files
.RData

# User-specific files
.Ruserdata

# Example code in package build process
*-Ex.R

# Output files from R CMD build
/*.tar.gz
output*

# Output files from R CMD check
/*.Rcheck/

# RStudio files
.Rproj.user/
*.Rproj

# VSCode files
*.code-workspace

# produced vignettes
vignettes/*.html
vignettes/*.pdf

# OAuth2 token, see https://github.com/hadley/httr/releases/tag/v0.3
.httr-oauth

# knitr and R markdown default cache directories
*_cache/
/cache/
*/*.html

# Temporary files created by R markdown
*.utf8.md
*.knit.md
*.html

# R Environment Variables
.Renviron

# Downloaded data from GEO (code will reconstruct this folder on demand)
HuOsteo/PrimaryTumor/*

# Intermediate data files (code will reconstruct these on demand)
*.qs

# Plots
*.png
HuOsteo/Plots/*
input
output
BC5
HuOsteo/MetsTumor/BC10
HuOsteo/MetsTumor/BC17
HuOsteo/MetsTumor/GSE152048/BC17
HuOsteo/MetsTumor/GSE152048/BC10
osteo_atlas.rmarkdown
samtools.
int
osteo_atlas_files
rfiles
tmp

# Temporary files created by R
bootstrap
anchor
*.RData
*.RDS
*.rds
*.Rds
*.js
*.gz
*.h5
*.hdf5
*.loom
*.loom.gz
*.loom.h5
*.loom.hdf5
*.csv
*.tsv
*_sobj
*NA
*.rds
*.RDataTmp
*_cutoff
*.Rhistory
*.Rapp.history
*.pdf
*.html
*.docx
*.pptx
*.ipynb
*.bcf
*.bam
*.bai
*.sam
*.vcf
*.fasta
*.log


#velocity analysis files
loom_output
loom_files_old
sbatch
tmp_bams
tmp_bcs
analyze_looms*
*gtf
new_looms

#DoubletFinder Files
DoubletFinder/Counts
DoubletFinder/output
DoubletFinder/slurm
DoubletFinder/all_demuxafy_results.qs
DoubletFinder/pdx_clinical_chimera

figures
demuxafy_figs


#doublet finder tests
*.bin
*.weights
*.tree
*.h5ad