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tanaylab
/
mcATAC
Metacell analysis for ATAC data
https://tanaylab.github.io/mcATAC/
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save_pheatmap returns error when dev = pdf
#66
yonatans2
opened
1 month ago
0
Fix@window size in call peaks
#65
aviezerl
closed
4 months ago
0
Feat@signal normalization
#64
aviezerl
closed
7 months ago
0
scc_to_peaks malfunction?
#63
yonatans2
closed
7 months ago
0
McPeaks export to h5ad remove slots
#62
drorbar
closed
4 months ago
0
Feat@nonmulti from multi
#61
ofirr
opened
10 months ago
0
Feat@nonmulti from multi
#60
ofirr
closed
10 months ago
0
Feat@nonmulti from multi
#59
ofirr
closed
10 months ago
0
Feat@pcr bias normalization
#58
aviezerl
closed
10 months ago
0
mcc_to_tracks promts(...) prompts Error message even when overwrite=T
#57
tomgome
closed
1 year ago
2
Feat@multi batch reads
#56
aviezerl
closed
1 year ago
0
Feat@shiny app
#55
aviezerl
closed
2 years ago
0
fix bug where plot_atac_rna_markers broke if cell_type column was aft…
#54
yonatans2
closed
2 years ago
0
mct_plot_region running out of memory
#53
yonatans2
closed
2 years ago
3
solve unnamed peaks set without raising Error when creating McPeaks object from McCounts
#52
tomgome
opened
2 years ago
1
generate_motif_pssm_matrix
#51
yonatans2
opened
2 years ago
1
Feat@tracks class
#50
aviezerl
closed
2 years ago
1
@param `atac` for get_peak_coverage_stats?
#49
tomgome
closed
2 years ago
3
Feat@order metacell tracks
#48
yonatans2
closed
2 years ago
2
plot_atac_rna_markers looks for colors in cell_type column
#47
jekas91
closed
2 years ago
1
coerced atac_mc@mat to matrix in relevant places
#46
yonatans2
closed
2 years ago
0
many functions resulted in Error because of atac_mc@mat is 'dgCMatrix'
#45
tomgome
closed
2 years ago
2
expanded ignoring peaks to egc, fp
#44
yonatans2
closed
2 years ago
0
plot_tracks_at_locus issue
#43
RoniSto
closed
2 years ago
1
add necessary checks for mcc_to_mcatac
#42
yonatans2
closed
2 years ago
0
mcc_to_mcatac
#41
yonatans2
closed
2 years ago
1
Added scc_extract and removed some checks for McCounts class
#40
aviezerl
closed
2 years ago
0
Fix@motifs
#39
yonatans2
closed
2 years ago
0
Adding smoothing capability to the atac "truth" heatmap
#38
amostanay
closed
2 years ago
0
Fix@generate pheatmap annotation
#37
yonatans2
closed
2 years ago
0
implemented TAD name annotation in plot_track_at_locus
#36
yonatans2
closed
2 years ago
1
added import_from_matrix function
#35
aviezerl
closed
2 years ago
0
Are metacell numbers 0- or 1-based
#34
yonatans2
closed
2 years ago
4
some bug fixes
#33
yonatans2
closed
2 years ago
0
fix: mcc_to_tracks failed on large datasets
#32
aviezerl
closed
2 years ago
0
mcc_to_tracks
#31
yonatans2
closed
2 years ago
3
fixed examples of plot_tracks_at_locus
#30
aviezerl
closed
2 years ago
0
Feat@plot tracks scale bar
#29
yonatans2
closed
2 years ago
0
Fix@plot tracks
#28
yonatans2
closed
2 years ago
0
fixed subset_bam error messages (hopefully)
#27
yonatans2
closed
2 years ago
0
Fix@write counts not zipped + smooth tracks
#26
aviezerl
closed
2 years ago
2
mcc_to_tracks
#25
yonatans2
closed
2 years ago
1
write_sc_counts_from_fragments -> scc_read
#24
yonatans2
closed
2 years ago
0
Feat@import raw counts
#23
aviezerl
closed
2 years ago
8
`atac_ignore_peaks` fails when given peak names
#22
aviezerl
closed
2 years ago
2
Feat@plot locus mc tracks
#21
yonatans2
closed
2 years ago
0
Hotfix@motifs
#20
yonatans2
closed
2 years ago
0
generate_pheatmap_annotation returns error when fed with a cell type annotation vector
#19
yonatans2
closed
2 years ago
0
Feat@name enhancers
#18
yonatans2
closed
2 years ago
3
Feat@subset bam
#17
yonatans2
closed
2 years ago
5
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