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bokulich-lab
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q2-assembly
QIIME 2 plugin for (meta)genome assembly.
BSD 3-Clause "New" or "Revised" License
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Closes Issue #51: Cannot download some files from the evaluate-contigs qzv
#52
Sann5
closed
1 year ago
1
Cannot download some files from the `evaluate-contigs` qzv
#51
misialq
closed
1 year ago
0
Added handling for empty or None sample_names
#50
ChristosMatzoros
closed
1 year ago
4
BUG: `index-contigs` fails if any input files are empty
#49
gregcaporaso
closed
6 months ago
4
MAINT: ensure that input names are consistent across actions
#48
gregcaporaso
opened
1 year ago
0
PIN: relax bowtie2 pin to resolve community distro failures
#47
lizgehret
closed
1 year ago
3
Parallelize assemble megahit
#46
Oddant1
closed
11 months ago
17
FIX: correct indexing params spec
#45
misialq
closed
1 year ago
1
ENH: allow passing genome references to evaluate-contigs action
#44
misialq
closed
1 year ago
1
Specify default settings for all actions
#43
nbokulich
closed
1 year ago
3
expose additional visualizations generated by QUAST in the `evaluate-contigs` visualization
#42
misialq
closed
1 year ago
0
`evaluate-contigs` fails on the most recent QUAST version
#41
misialq
opened
1 year ago
0
update to install most recent working q2 version
#40
gregcaporaso
closed
1 year ago
1
`evaluate-contigs` fails with `OSError: [Errno 28] No space left on device`
#39
gregcaporaso
closed
7 months ago
8
fix file name to sample id assumption
#38
gregcaporaso
closed
1 year ago
7
invalid sample name assumption causes failure in `evaluate-contigs`
#37
gregcaporaso
closed
1 year ago
0
outdated help text on evaluate-contigs
#36
gregcaporaso
closed
1 year ago
1
`evaluate-contigs` should accept reference seqs
#35
misialq
closed
1 year ago
0
Expose more QUAST parameters
#34
misialq
closed
1 year ago
0
FIX: enable multi-processing on Linux
#33
misialq
closed
1 year ago
4
Enable multiprocessing in `evaluate-contigs`
#32
misialq
closed
1 year ago
1
specify default values in function definition
#31
gregcaporaso
closed
1 year ago
4
FIX: set the default thread count to 1 in all actions
#30
misialq
closed
1 year ago
2
default values for number of CPU threads
#29
gregcaporaso
closed
1 year ago
1
MAINT: update conda channel in the readme
#28
misialq
closed
2 years ago
1
Generate Reads unexpected inputs needed
#27
lianamerk
closed
1 year ago
0
MAINT: Update README
#26
misialq
closed
2 years ago
1
ENH: add better pre-commit hooks
#25
misialq
closed
2 years ago
1
MAINT: clean up CI tasks
#24
misialq
closed
2 years ago
1
Update README
#23
misialq
closed
2 years ago
0
ENH: implement co-assembly option
#22
misialq
closed
7 months ago
1
Clean up the CI
#21
misialq
closed
2 years ago
0
CI/DEP: update recipe and add quast
#20
ebolyen
closed
2 years ago
6
MAINT: more CI improvements
#19
misialq
closed
2 years ago
1
MAINT: add an independent test step to CI
#18
misialq
closed
2 years ago
0
MAINT: readme and header updates
#17
misialq
closed
2 years ago
0
MAINT: update dependencies
#16
misialq
opened
2 years ago
2
ENH: read mapping to contigs using Bowtie2
#15
misialq
closed
2 years ago
3
BUG: remove unsupported quast param
#14
misialq
closed
3 years ago
0
ENH: NGS read simulation with InSilicoSeq
#13
misialq
closed
3 years ago
0
ENH: contig/MAG indexing with bowtie2
#12
misialq
closed
3 years ago
0
MAINT: simplified installation instructions
#11
misialq
closed
3 years ago
0
MAINT: update README with installation instructions
#10
misialq
closed
3 years ago
0
ENH: assembly QC QUAST-based visualisation
#9
misialq
closed
3 years ago
0
ENH: assemble-spades action
#8
misialq
closed
3 years ago
0
ENH: assemble-megahit action
#7
misialq
closed
3 years ago
0
MAINT: initial setup
#6
misialq
closed
3 years ago
0
Implement read mapping action
#5
misialq
closed
2 years ago
0
Implement contig read indexing action
#4
misialq
closed
3 years ago
0
Implement assembly QC visualisation
#3
misialq
closed
3 years ago
0
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