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TravisWheelerLab
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Mirage
Mirage generates multiple sequence alignments of proteoforms by mapping sequences back to their coding regions on the genome and then compressing those mappings into alignments.
BSD 3-Clause "New" or "Revised" License
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Update README.md
#78
alexander-nord
closed
8 months ago
0
Added additional BLAT binaries to the standard Mirage2 package
#77
alexander-nord
closed
8 months ago
0
build failed on m1 Mac
#76
ybao3
closed
8 months ago
1
Fixed an issue where Blosum-62 scores weren't organized alphabetically
#75
alexander-nord
closed
1 year ago
0
S222
#74
alexander-nord
closed
1 year ago
0
Intra-species MSAs no longer have an extra space between the end
#73
alexander-nord
closed
1 year ago
0
User can now call './mirage2 --help' even if the build is incomplete
#72
alexander-nord
closed
1 year ago
0
Updated the user assistance we print when no arguments are provided
#71
alexander-nord
closed
1 year ago
0
Dgd update
#70
alexander-nord
closed
1 year ago
0
Deleted files that we no longer use
#69
alexander-nord
closed
1 year ago
0
Minor re-working associated with making Diviner its own entity
#68
alexander-nord
closed
1 year ago
0
Fixed a minor bug where a directory could be created with '//' at the…
#67
alexander-nord
closed
1 year ago
0
Fixed a bug where a sequence ID could potentially be duplicated
#66
alexander-nord
closed
1 year ago
0
New spaln check
#65
alexander-nord
closed
1 year ago
0
Improved formatting of timing data
#64
alexander-nord
closed
1 year ago
0
Changed commandline flags for 'blat_off' and 'only_map' to have under…
#63
alexander-nord
closed
1 year ago
0
Just map
#62
alexander-nord
closed
1 year ago
0
Added conditionals to check if we've already built specific dependenc…
#61
alexander-nord
closed
2 years ago
0
Fixed recommended placement location of BLAT binary
#60
alexander-nord
closed
2 years ago
0
Reordered installation of dependencies so that BLAT is last
#59
alexander-nord
closed
2 years ago
0
Changed recommended positioning of blat binary to 'cp' from 'mv'
#58
alexander-nord
closed
2 years ago
0
Updated readme to include instructions for using the BLAT
#57
alexander-nord
closed
2 years ago
0
Added a Linux BLAT binary, so we can get around installation issues
#56
alexander-nord
closed
2 years ago
0
Reduced the window of sequence we pull in at terminal ends to 25kb
#55
alexander-nord
closed
2 years ago
0
Diviner bed
#54
alexander-nord
closed
2 years ago
0
Adjusted a file naming convention (hopefully making things easier for…
#53
alexander-nord
closed
2 years ago
0
Added generation of a .bed file (one per species) to standard output
#52
alexander-nord
closed
2 years ago
0
Keypos fix
#51
alexander-nord
closed
2 years ago
0
Outputs
#50
aylinsonlu
closed
2 years ago
5
Fixed a variable naming error, where we were creating a new 'msa_len'…
#49
alexander-nord
closed
2 years ago
0
Seq cp fix
#48
alexander-nord
closed
2 years ago
0
Revert "Time debug"
#47
alexander-nord
closed
2 years ago
0
Time debug
#46
alexander-nord
closed
2 years ago
0
Update README.md
#45
alexander-nord
closed
2 years ago
0
Build runner image on release
#44
glesica
closed
2 years ago
0
Mappy diviner
#43
alexander-nord
closed
2 years ago
0
Diviner now reports exon-level mapping data alongside its species MSAs
#42
alexander-nord
closed
2 years ago
0
Fixed the possibility of pathological whitespace breaking species DB-ification
#41
alexander-nord
closed
2 years ago
0
Set a maximum line length for subdivided DB entries
#40
alexander-nord
closed
2 years ago
0
Fixed where we look for input files if the user provided command args
#39
alexander-nord
closed
2 years ago
0
Once again, we're no longer making a tree if there are <3 species
#38
alexander-nord
closed
2 years ago
0
Revert "We no longer build trees with less than 3 species"
#37
alexander-nord
closed
2 years ago
0
We no longer build trees with less than 3 species
#36
alexander-nord
closed
2 years ago
0
All uses of 'rm -rf' are now non-blocking
#35
alexander-nord
closed
2 years ago
0
Added record of exon novelty to alignment output
#34
alexander-nord
closed
2 years ago
0
Fixed counting of name lengths for final output formatting
#33
alexander-nord
closed
2 years ago
0
Fixed the 'Amino-residue-to-index' function
#32
alexander-nord
closed
2 years ago
0
Exon count fix
#31
alexander-nord
closed
2 years ago
0
Exon count fix
#30
alexander-nord
closed
2 years ago
0
Bureaucracy fix
#29
alexander-nord
closed
2 years ago
0
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