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Analyzed 1 day ago. based on code collected 1 day ago.
Aug 30, 2024 — Aug 30, 2025
Commit Message Contributor Files Modified Lines Added Lines Removed Code Location Date
return path instead of edgelist in algorithms.lpsolve.hamiltonian()
tanghaibao
as Haibao Tang
More... over 11 years ago
add assembly.geneticmap.ScaffoldOO to order and orient scaffolds
tanghaibao
as Haibao Tang
More... over 11 years ago
add hamiltonian path finder to algorithms.lpsolve
tanghaibao
as Haibao Tang
More... over 11 years ago
assign linkage groups to consensus partition and assign scaffolds to best partition
tanghaibao
as Haibao Tang
More... over 11 years ago
add assembly.geneticmap.merge()
tanghaibao
as Haibao Tang
More... over 11 years ago
improve breakpoint identification in assembly.geneticmap
tanghaibao
as Haibao Tang
More... over 11 years ago
add breakpoint identification in assembly.geneticmap
tanghaibao
as Haibao Tang
More... over 11 years ago
Some more minor changes to formats.psl parser; add `--jgi` param to annotation.reformat.rename() to generate JGI style locus IDs
vivekkrish
as Vivek Krishnakumar
More... over 11 years ago
add assembly.geneticmap.path()
tanghaibao
as Haibao Tang
More... over 11 years ago
move dependency pybedtools into local scope in annotation.reformat
tanghaibao
as Haibao Tang
More... over 11 years ago
Modified atg_name() regex to also work with new JGI locus names; Modified PslLine logic when dealing with translated alignments
vivekkrish
as Vivek Krishnakumar
More... over 11 years ago
ignore empty lines in formats.base.SetFile
tanghaibao
as Haibao Tang
More... over 11 years ago
Reinistate `id = accn` assignment in class GffLine(); slight logic changes to gff.format() remove_attrs action
vivekkrish
as Vivek Krishnakumar
More... over 11 years ago
add apps.base.OptionParser.set_table()
tanghaibao
as Haibao Tang
More... over 11 years ago
fix bug in graphics.histogram()
tanghaibao
as Haibao Tang
More... over 11 years ago
change apps.vecscreen to use Ecoli K12 DH10B instead
tanghaibao
as Haibao Tang
More... over 11 years ago
Add option to remove attribute(s) in formats.gff.format(); fix atg_name() regex in annotations.reformat
vivekkrish
as Vivek Krishnakumar
More... over 11 years ago
add option --type in formats.sam.count()
tanghaibao
as Haibao Tang
More... over 11 years ago
add expression.heterosis.mergeclean()
tanghaibao
as Haibao Tang
More... over 11 years ago
add option --single to assembly.automaton.tophat()
tanghaibao
as Haibao Tang
More... over 11 years ago
check file existence in formats.sam.count()
tanghaibao
as Haibao Tang
More... over 11 years ago
adjust logic used to resolve an invalid SO term to a valid one; adjust regex used to parse locus identifiers
vivekkrish
as Vivek Krishnakumar
More... over 11 years ago
add target all at the start of makefile
tanghaibao
as Haibao Tang
More... over 11 years ago
use max cpus in assembly.automaton()
tanghaibao
as Haibao Tang
More... over 11 years ago
remove target to avoid overwriting symlinked files in formats.sam.merge()
tanghaibao
as Haibao Tang
More... over 11 years ago
add apps.grid.MakeManager to write makefiles
tanghaibao
as Haibao Tang
More... over 11 years ago
fix inset patch in graphics.chromosome.HorizontalChromosome when roundrect=True
tanghaibao
as Haibao Tang
More... over 11 years ago
allow special plotting of asterisk in graphics.napus.f3a()
tanghaibao
as Haibao Tang
More... over 11 years ago
use cluster tag in PBJELLY to generate commands for parallelization
tanghaibao
as Haibao Tang
More... over 11 years ago
fix issues after upgrading to latest PBJELLY
tanghaibao
as Haibao Tang
More... over 11 years ago