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ComparativeGenomicsToolkit
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hal
Hierarchical Alignment Format
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UCSC genome browser fails to display an assembly hub due to a hal get blocks error
#209
ybukhman
opened
3 years ago
1
halReplaceGenome error
#208
lwlive
opened
3 years ago
0
hal2mafMP.py doesn't find sonLib
#207
Tkastylevsky
opened
3 years ago
0
Poke CI
#206
glennhickey
closed
3 years ago
0
installation problem
#205
Tkastylevsky
closed
3 years ago
3
fixed bug where openGenomeCheck had been not correctly being changed …
#204
diekhans
closed
3 years ago
0
HalPhyloPTrain.py error
#203
SimonaSecomandi
opened
3 years ago
4
hal2maf Segmentation fault
#202
lwlive
opened
3 years ago
6
halPhyloPTrain.py on ancestral repeats for halPhyloPMP.py
#201
SimonaSecomandi
opened
3 years ago
0
Remve singleMachine batch system check from hal2assemblyHub.py
#200
glennhickey
closed
3 years ago
0
RuntimeError: singleMachine is the only supported batchSystem
#199
saoirseguita
opened
3 years ago
3
Path / directory structure errors
#198
saoirseguita
closed
3 years ago
1
halPhyloPTrain.py with ancestral repeats
#197
SimonaSecomandi
opened
3 years ago
0
installation issue: fit_column.h
#196
saoirseguita
closed
3 years ago
4
hal2mafMP.py error: Invalid range specified for convertGenome
#195
anecsulea
opened
3 years ago
6
halSnps conversion problem
#194
cahende
opened
3 years ago
0
hal2chain for faster halLiftover
#193
badoi
opened
3 years ago
5
parsing .hal file by list of species
#192
devonorourke
opened
3 years ago
5
bed file used in hal4dextract
#191
biozhangzhou
opened
3 years ago
0
Is it possible to get all the pairwise mapping position by hal2paf?
#190
Secretloong
closed
3 years ago
2
hal2maf export score
#189
zhenzhenyang-psu
opened
3 years ago
0
hal2assemblyHub.py Invalid tree error when computing conservation tracks
#188
alexgilgal
closed
3 years ago
1
The results of halTreePhyloP.py
#187
minjinhan
opened
3 years ago
0
HDF5 error with hal2maf after using halReplaceGenome
#186
pbandjanet
opened
3 years ago
4
fixed compatiblity with various versions of HDF5 and recent changes to kent library
#185
diekhans
closed
3 years ago
0
halPhyloPTrain error
#184
minjinhan
closed
3 years ago
2
Getting Chromosome Sizes from hal File
#183
imk1
closed
3 years ago
2
correctly return error if halOpenHalOrLod() is done on a non-existant file
#182
diekhans
closed
3 years ago
0
Fixed compile errors with that have crept in with optional UDC cache
#180
diekhans
closed
3 years ago
0
why is sonLib using -fPIC
#179
diekhans
opened
3 years ago
0
halPhyloP compilation issues
#178
marta-fb
opened
3 years ago
3
hal2maf should add maf header
#177
diekhans
closed
3 years ago
1
syntenic build
#176
wuxingbo1986
closed
3 years ago
1
halReplaceGenome HDF5 error
#175
pbandjanet
closed
4 years ago
4
hal2maf refgap problems
#174
diekhans
opened
4 years ago
1
UDC support no longer compiles
#173
diekhans
closed
2 years ago
1
hal2fasta and H5::DataSetIException
#172
annabananakobana
closed
4 years ago
8
halStats: command not found
#171
annabananakobana
closed
4 years ago
2
fatal error: fit_column.h: No such file or directory
#170
annabananakobana
closed
4 years ago
2
halAddToBranch error
#169
marta-fb
opened
4 years ago
0
Cannot run hal2assemblyHub.py Segmentation fault
#168
yige-luo
opened
4 years ago
0
Cannot run hal2assemblyHub.py invalid syntax from getattr(supported_formats[format], "parse")(fp, **kwargs)
#167
yige-luo
opened
4 years ago
0
Cannot run hal2assemblyHub.py with minimal input requirement
#166
yige-luo
closed
4 years ago
4
Get indels directly from HAL
#165
RenzoTale88
opened
4 years ago
2
halAddToBranch dumps core
#164
ybukhman
closed
4 years ago
3
Add outgroup to HAL
#163
francicco
opened
4 years ago
1
halSynteny produces no output on chrM to chrM identical sequencies
#162
diekhans
closed
4 years ago
3
update hal2paf example to reflect reverted hal2fasta interface
#161
glennhickey
closed
4 years ago
0
update hal2vg README section
#160
glennhickey
closed
4 years ago
0
halSnps segfaults on many inputs
#159
glennhickey
opened
4 years ago
1
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