issues
search
thiagomaf
/
CSCpromoters
The goal of CSCpromoters is to extract, export and plot sequences of promoter regions from the genome fasta files.
MIT License
3
stars
1
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Substitute %>% by |>
#31
thiagomaf
opened
1 month ago
0
Improve promoter plots
#30
thiagomaf
opened
1 month ago
0
Problem with bad/duplicated loci entries
#29
thiagomaf
opened
1 month ago
1
Problem when querying locus ids - unsanitized locus ids
#28
thiagomaf
opened
1 month ago
1
Fix "Install" instructions on README
#27
thiagomaf
opened
1 month ago
0
Issue with promoter identification logic
#26
thiagomaf
closed
11 months ago
1
write_fasta() issue with input filename indexes
#25
thiagomaf
closed
1 year ago
1
Export promoter distance list to help users troubleshoot
#23
MinYaoJhu
opened
1 year ago
1
Improve `{{roxygen2}}` annotations
#22
thiagomaf
closed
1 year ago
1
`{{usethis}}` command list
#21
thiagomaf
closed
1 year ago
0
Assure all `strand`, `begin` and `end` are defined programatically
#20
thiagomaf
closed
1 year ago
1
Wrong distance calculations
#19
thiagomaf
closed
1 year ago
1
Rename `.dist_var` to `.size_var` and create proper `.dist_var`
#18
thiagomaf
closed
1 year ago
0
Improve chromosome FASTA file input
#17
thiagomaf
closed
1 year ago
2
Fix roxygen2 annotations
#16
thiagomaf
closed
1 year ago
0
Fix file structure
#15
thiagomaf
closed
1 year ago
0
Change `trim_distances()` name to `set_promoter_sizes()`
#14
thiagomaf
closed
1 year ago
3
Change current `get_promoters()` function name to `get_promoter_sequences()`
#13
thiagomaf
closed
1 year ago
0
Write vignette files
#12
thiagomaf
opened
1 year ago
5
Create test files for each function
#11
thiagomaf
opened
1 year ago
1
Create `roxygen2` annotations for each function
#10
thiagomaf
closed
1 year ago
0
Slip `simplified_code.Rmd` into individual function files
#9
thiagomaf
closed
1 year ago
0
Assess whether `begin` and `end` locus coordinates can be taken out of .GFF files rather than annotation tables
#8
thiagomaf
closed
1 year ago
1
Create a pipeline function to filter for locus names - `filter_locus()`
#7
thiagomaf
closed
1 year ago
1
Write an overall wrap-up function `get_promoters()`
#6
thiagomaf
closed
1 year ago
1
Write README.md
#5
thiagomaf
closed
1 year ago
2
Simplify/revise the code
#4
thiagomaf
closed
1 year ago
0
Implement locus selection upstream of distance calculations
#3
thiagomaf
closed
1 year ago
0
Deal with common functions
#2
thiagomaf
closed
1 year ago
2
Implement parallel computation
#1
thiagomaf
opened
1 year ago
1