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Commits : Listings

Analyzed about 14 hours ago. based on code collected about 14 hours ago.
Jul 25, 2024 — Jul 25, 2025
Commit Message Contributor Files Modified Lines Added Lines Removed Code Location Date
minor fix for self comparison in read_blast()
tanghaibao
as Haibao Tang
More... about 13 years ago
enhance algorithms.synteny.mcscan() to select the best pair within each block
tanghaibao
as Haibao Tang
More... about 13 years ago
algorithms.synteny.liftover now recruits extra pairs directly to each block
tanghaibao
as Haibao Tang
More... about 13 years ago
add algorithms.synteny.summary() and stats()
tanghaibao
as Haibao Tang
More... about 13 years ago
add option --ids to assembly.geneticmap
tanghaibao
as Haibao Tang
More... about 13 years ago
add formats.fasta.ispcr() to format isPcr input
tanghaibao
as Haibao Tang
More... about 13 years ago
fix bug in assembly.patch.install()
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.geneticmap.header()
tanghaibao
as Haibao Tang
More... about 13 years ago
update README for external programs
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.geneticmap.rename() to rename markers to new assembly
tanghaibao
as Haibao Tang
More... about 13 years ago
fix minor bug in graphics.dotplot
tanghaibao
as Haibao Tang
More... about 13 years ago
fix bug in assembly.patch.closest()
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.patch.eject() to remove components from assembly
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.patch.insert() to insert unplaced scaffolds back into assembly
tanghaibao
as Haibao Tang
More... about 13 years ago
fix math in assembly.patch.bambus()
tanghaibao
as Haibao Tang
More... about 13 years ago
do not write pairs.bed in assembly.patch.bambus()
tanghaibao
as Haibao Tang
More... about 13 years ago
add utils.range.ranges_depth() to calculate depth along a list of intervals
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.patch.bambus() to insert unplaced scaffolds into chr
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.geneticmap.fasta() to extract SNP markers
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.patch.tips()
tanghaibao
as Haibao Tang
More... about 13 years ago
add option --prefix and --strict to assembly.patch.install()
tanghaibao
as Haibao Tang
More... about 13 years ago
replace sequence ranges in assembly.patch.install()
tanghaibao
as Haibao Tang
More... about 13 years ago
parse blastfile instead of bedfile in assembly.patch.install()
tanghaibao
as Haibao Tang
More... about 13 years ago
add formats.agp.frombed() to build AGP file from bed intervals
tanghaibao
as Haibao Tang
More... about 13 years ago
add formats.bed.uniq() to remove overlapping features
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.patch.install()
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.patch.fill for gap filling; allow --wordsize for BLAST wrapper
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.patch.install()
tanghaibao
as Haibao Tang
More... about 13 years ago
add formats.coords.blast()
tanghaibao
as Haibao Tang
More... about 13 years ago
add assembly.geneticmap
tanghaibao
as Haibao Tang
More... about 13 years ago