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thackl
/
gggenomes
A grammar of graphics for comparative genomics
https://thackl.github.io/gggenomes/
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read_feats() fails on reading gff files - need to @import dplyr
#96
bfrommer
closed
2 years ago
7
Issue with installation (Mac OS, XCode)
#95
awalling
closed
2 years ago
4
Read gff files with missing attribute (currently crashes gff2 vs gff3 check)
#94
thackl
closed
2 years ago
0
geneious data input issues
#93
tardl
closed
2 years ago
2
Import DECIPHER synteny as links
#92
nschan
closed
2 years ago
1
flip() function for genes containing introns
#91
xvtyzn
opened
2 years ago
3
need help
#90
GeminiSwan
closed
10 months ago
2
coord_polar
#89
thackl
opened
2 years ago
1
Installation error
#88
joegeorgeson
closed
2 years ago
5
Question regarding geom_link
#87
hkaspersen
closed
2 years ago
4
Error with example data
#86
hkaspersen
closed
2 years ago
2
Enhancements: seq breaks symbols and scale
#85
iferres
closed
10 months ago
7
retain order of input sequences for loci in focus
#84
thackl
closed
2 years ago
0
Seq order (`as.factor`) get lost when `focus()`ing
#83
iferres
closed
2 years ago
5
Easyfig or mauve outputs?
#82
cms72
closed
2 years ago
10
fix focus and flip bug plus some flip doc
#81
thackl
closed
2 years ago
0
pick() should support where() the same way flip() does
#80
thackl
opened
2 years ago
0
pick() is currently not implemented as S3 generic, but probably should be
#79
thackl
opened
2 years ago
0
flip() supports where() with .bin_track/.seq_track but lacks an example
#78
thackl
closed
2 years ago
1
flip_seqs ignores .bin
#77
thackl
closed
2 years ago
0
Allow drawing all links among all genomes
#76
thackl
closed
2 years ago
0
Package examples fail with: `Error in set_class(., "gggenomes_layout", "prepend")`
#75
iferres
closed
2 years ago
2
Bug in focus() when supplying loci
#74
johnomics
closed
2 years ago
1
Successive ribbon and track colors
#73
ptranvan
closed
10 months ago
4
Allow drawing all links among all genomes
#72
thackl
closed
2 years ago
0
Fix collapsed CDS in write_gff3
#71
thackl
closed
3 years ago
0
Draw all links and not only those between adjacent genomes
#70
thackl
closed
2 years ago
1
Synteny plot from several segments to one specific segment in the plot
#69
StromTroopers
closed
2 years ago
5
follow-up on improvements and fixes for reading gff files, including support for gtf/gff2
#68
thackl
closed
3 years ago
0
"#" character in attributes breaks read_gff3()
#67
thackl
opened
3 years ago
0
Gff issues
#66
thackl
closed
3 years ago
0
How to handle buggy Augustus gffs
#65
thackl
closed
2 years ago
2
About read_gff3 and intron visualization
#64
xvtyzn
closed
3 years ago
4
generating a file like emale_prot_ava
#63
aleuUH
closed
3 years ago
2
issue with read_seqs()
#62
aleuUH
closed
3 years ago
5
Add Hmisc package to CI
#61
thackl
closed
3 years ago
3
first sections of "get-started" doc, and geom_wiggle
#60
thackl
closed
3 years ago
0
Fix documentation problem
#59
iimog
closed
3 years ago
0
y-coords not reversed anymore, but instead bin positions are mapped reversely to numeric y-coordinates to arrange bins from top to bottom. Fixes #55
#58
thackl
closed
3 years ago
0
Error in pick_by_tree documentation example
#57
thackl
closed
3 years ago
0
Added scale_x_bp() as default x-scale
#56
thackl
closed
3 years ago
0
reverse_trans() for y-axis has odd side-effects
#55
thackl
closed
3 years ago
1
Find better way for x-axis than to overwrite `scale_x_continuous`
#54
thackl
closed
3 years ago
0
Unable to import tutorial data
#53
mschecht
closed
3 years ago
2
Text associated with overlapping gene regions
#52
jchariker
closed
3 years ago
4
read_gff3 makes all features introns of ID tag is missing
#51
thackl
closed
3 years ago
0
Added locate - like focus, but add loci as track instead of zoom; added position_* examples
#50
thackl
closed
3 years ago
0
A filter_track() family might be quite useful after all
#49
thackl
opened
3 years ago
0
Add life-cycle badges to function
#48
thackl
closed
10 months ago
1
Default position for geom_feat should be "identity", or pile with "0" offset
#47
thackl
closed
3 years ago
1
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