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chanzuckerberg
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shasta
[MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads
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Documentation changes.
#148
bagashe
closed
4 years ago
1
[Bugfix] Use the correct value for banded SeqAn in radio button input.
#147
bagashe
closed
4 years ago
0
Minor changes to documentation.
#146
bagashe
closed
4 years ago
3
Documentation revamp
#145
bagashe
closed
4 years ago
0
Write suppressed alignment candidates to a csv file.
#144
bagashe
closed
4 years ago
0
Reuse spoa::AlignmentGraph object to reduce memory allocations.
#143
bagashe
closed
4 years ago
0
Comment explaining why BUILD_USE_SPOA_WITH_CPU_DISPATCH is set according to OS version.
#142
bagashe
closed
4 years ago
0
Upgrade to SPOA 3.4.0
#141
bagashe
closed
4 years ago
1
Error with --memoryBacking 2M
#140
soumyarao86
closed
4 years ago
6
Name the Ubuntu-20-04 artifact shasta-Linux-Beta
#139
bagashe
closed
4 years ago
2
Build on Ubuntu 20.04 LTS in Github actions.
#138
bagashe
closed
4 years ago
0
Adding a configuration option to skip flagging of Palindromic reads.
#137
bagashe
closed
4 years ago
0
Drop GPU support from Shasta
#136
bagashe
closed
4 years ago
0
Clean up docs and Build files.
#135
bagashe
closed
4 years ago
1
Link to portable version of SPOA library. Build a portable version of Shasta by default.
#134
bagashe
closed
4 years ago
0
Remove edlib and delete alignment method 2
#133
bagashe
closed
4 years ago
0
Shasta compiles with SeqAn on MacOS.
#132
bagashe
closed
4 years ago
0
Alignment configuration table revamp and high level style changes.
#131
bagashe
closed
4 years ago
1
Empty assembly fasta file
#130
EvoEpi
closed
4 years ago
10
[HttpServer] exploreAlignment & computeAllAlignments now use the same input form
#129
bagashe
closed
4 years ago
0
Unknown error
#128
warrenlr
closed
4 years ago
67
ld ERROR when compiled
#127
Axolotl233
closed
4 years ago
13
Build on Ubuntu 20.04 LTS
#126
bagashe
closed
4 years ago
0
Spending a very long time "Processing marker graph vertices"
#125
ekg
closed
4 years ago
2
telomere and nanopore chimeric sequences
#124
christinawu2008
closed
4 years ago
5
segmentation faults when beginning "simplifyMarkerGraph"
#123
Nheyer
closed
4 years ago
5
Assertion failed: readCount > 0 at void ChanZuckerberg::shasta::Assembler::findAlignmentCandidatesLowHash(std::size_t, double, std::size_t, std::size_t, std::size_t, std::size_t, std::size_t) in /home/paolo/shasta/src
#122
SaumikDana
closed
4 years ago
17
Assertion failed: readCount > 0 at void ChanZuckerberg::shasta::Assembler::findAlignmentCandidatesLowHash(std::size_t, double, std::size_t, std::size_t, std::size_t, std::size_t, std::size_t) in /home/paolo/shasta/src
#121
SaumikDana
closed
4 years ago
1
Remove redefinition of std
#120
yatisht
closed
4 years ago
0
Install cuda from network
#119
yatisht
closed
4 years ago
0
Reuse code to compute total kmer count.
#118
bagashe
closed
4 years ago
4
Insight into aborted run
#117
juefish
closed
4 years ago
3
where is shasta?
#116
dunedice
closed
4 years ago
2
Drop the old reads page.
#115
bagashe
closed
4 years ago
0
Cleanup thread storage allocated for compressed alignments.
#114
bagashe
closed
4 years ago
0
Collapse alignMethodForReadGraph & alignMethodForMarkerGraph into a single alignMethod config option.
#113
bagashe
closed
4 years ago
0
Use alignment.clear() instead of alignment.ordinals.clear()
#112
bagashe
closed
4 years ago
0
Minor cleanup of compression/decompression code.
#111
bagashe
closed
4 years ago
0
Use stored alignments if available
#110
bagashe
closed
4 years ago
2
Change title of marker frequency table on reads page to indicate whether a selected portion of the read is being visualized.
#109
bagashe
closed
4 years ago
1
Compress and store good alignments.
#108
bagashe
closed
4 years ago
0
Change order of template parameters in forward declaration of MemoryMappedVectorOfVectors
#107
bagashe
closed
4 years ago
0
Implementation of a compression scheme for storing alignments.
#106
bagashe
closed
4 years ago
0
New Reads page is now the main reads page.
#105
bagashe
closed
4 years ago
0
Replace /exploreOverlappingReads with /exploreAlignments
#104
bagashe
closed
4 years ago
0
A more vertically consensed reads page.
#103
bagashe
closed
4 years ago
0
Unbreak MacOS builds.
#102
bagashe
closed
4 years ago
0
Unbreak mac builds
#101
bagashe
closed
4 years ago
1
Run github action workflows on all branches.
#100
bagashe
closed
4 years ago
0
Added a new exploreReadExperimental page.
#99
bagashe
closed
4 years ago
0
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