Commits · 90f8a13bc33ae0a142f927c4226fb77a284a9c8a · loosolab / software / multicrispr · GitLab

23 Oct, 2019 1 commit
- RENAME read_bed -> bed_to_granges · 90f8a13b
  aditya.bhagwat authored Oct 23, 2019
  
  90f8a13b
22 Oct, 2019 8 commits
- Add example to EnsDb.Mmusculus.v98() and EnsDb.Hsapiens.v98() · b267c4b9
  aditya.bhagwat authored Oct 22, 2019
  
  b267c4b9
- Ensure functions <= 50 lines to satisfy BiocCheck · 36eaf738
  aditya.bhagwat authored Oct 22, 2019
  
  36eaf738
- Ensure 80-character lines to satisfy BiocCheck · 0f32db11
  aditya.bhagwat authored Oct 22, 2019
  
  0f32db11
- Ensure 4-space indentation to satisfy BiocCheck · a436d599
  aditya.bhagwat authored Oct 22, 2019
  
  a436d599
- Rm obsolete code · 373ff59c
  aditya.bhagwat authored Oct 22, 2019
  
  373ff59c
- Ensure 4-space indentation to satisfy BiocCheck · 97462443
  aditya.bhagwat authored Oct 22, 2019
  
  97462443
- Add missing require(magrittr) in example · a883d670
  aditya.bhagwat authored Oct 22, 2019
  
  a883d670
- Accomodate extend_fourways -> extend · 64d6ea5d
  aditya.bhagwat authored Oct 22, 2019
  
  64d6ea5d
21 Oct, 2019 24 commits
- Accomodate renaming: find_cas9ranges -> find_cas9s · 8644881b
  aditya.bhagwat authored Oct 21, 2019
  
  8644881b
- double_flank -> flank_fourways · 70f0f053
  aditya.bhagwat authored Oct 21, 2019
  
  70f0f053
- Rename: complement -> add_inverse_strand (returns both original AND complementary strand) · b23689ed
  aditya.bhagwat authored Oct 21, 2019
  
  b23689ed
- Fix annotate_granges example · d7ee0209
  aditya.bhagwat authored Oct 21, 2019
  
  d7ee0209
- GenomeInfoDb: @import -> :: · 70f5aa7f
  aditya.bhagwat authored Oct 21, 2019
  
  70f5aa7f
- txdb, ensdb -> db · c367ca09
  aditya.bhagwat authored Oct 21, 2019
  
  c367ca09
- Biostrings, GenomeInfoDb: @import -> :: · 0463f8b8
  aditya.bhagwat authored Oct 21, 2019
  
  0463f8b8
- Update vignette · 276dcac6
  aditya.bhagwat authored Oct 21, 2019
  
  276dcac6
- Update test_slop to accomodate renaming of slop() -> extend() · 2b26c0ad
  aditya.bhagwat authored Oct 21, 2019
  
  2b26c0ad
- document() · b8a95376
  aditya.bhagwat authored Oct 21, 2019
  
  b8a95376
- ADD inst/scripts/annotationhub_resources.R · a9d56c5a
  aditya.bhagwat authored Oct 21, 2019
  
  a9d56c5a
- find_cas9s: accomodate renaming of (canonical)chromosomes -> (canonical)seqlevels · 3dcc11f9
  aditya.bhagwat authored Oct 21, 2019
  
  3dcc11f9
- find_cas9s: accomodate renaming of slop_fourways -> extend_fourways · 04f16cb4
  aditya.bhagwat authored Oct 21, 2019
  
  04f16cb4
- Update find_cas9s arguments: targetranges -> gr, add inclcompl · f014edfc
  aditya.bhagwat authored Oct 21, 2019
  
  f014edfc
- CREATE complement() · 1edab513
  aditya.bhagwat authored Oct 21, 2019
  
  1edab513
- seqs(): return character (rather than DNAString) and improve documentation. · 5a730067
  aditya.bhagwat authored Oct 21, 2019
  
  5a730067
- CREATE canonicalSeqLevels() · 6c9bda33
  aditya.bhagwat authored Oct 21, 2019
  
  6c9bda33
- CREATE EnsDb.Mmusculus.v98() and EnsDb.Hsapiens.v98() · d9044699
  aditya.bhagwat authored Oct 21, 2019
  
  d9044699
- 04_flank_slop.R -> 04_straddle.R · 04fb2a54
  aditya.bhagwat authored Oct 21, 2019
  
  04fb2a54
- read_bed(..., do_order = TRUE) · 38878117
  aditya.bhagwat authored Oct 21, 2019
  
  38878117
- Add genes_to_granges and annotate_granges · ee0a86d7
  aditya.bhagwat authored Oct 21, 2019
  
  ee0a86d7
- plot_intervals: add title, xlab, ylab · 8ace6a68
  aditya.bhagwat authored Oct 21, 2019
  
  8ace6a68
- plot_karyogram: relevantchroms = union(seqlevelsinuse, canonicalseqlevels) · fd06b241
  aditya.bhagwat authored Oct 21, 2019
  
  fd06b241
- plot_karyogram: add @seealso karyoploteR · 04e5b7e7
  aditya.bhagwat authored Oct 21, 2019
  
  04e5b7e7
18 Sep, 2019 1 commit
- Fix and Align with BioC · e2517bb4
  aditya.bhagwat authored Sep 18, 2019
  
  e2517bb4
17 Sep, 2019 3 commits
- re-document() · 1216b2ed
  aditya.bhagwat authored Sep 17, 2019
  
  1216b2ed
- Rename some R files · 78c4e675
  aditya.bhagwat authored Sep 17, 2019
  
  78c4e675
- rm additional columns in SRF.bed · 1d581bf2
  aditya.bhagwat authored Sep 17, 2019
  
  1d581bf2
16 Sep, 2019 1 commit
- Add plots, integrate into BioC, check. · 4bc7499f
  aditya.bhagwat authored Sep 12, 2019
  
  4bc7499f
28 Aug, 2019 2 commits
- Update vignette · 45830d40
  aditya.bhagwat authored Aug 28, 2019
  
  45830d40
- Update vignette · a4c4b04c
  aditya.bhagwat authored Aug 28, 2019
  
  a4c4b04c