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ohnosequences
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mg7
Configurable and scalable 16S metagenomics data analysis
https://goo.gl/y3rZFD
GNU Affero General Public License v3.0
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Replace "metagenomics" by "microbiome"?
#87
eparejatobes
closed
7 years ago
2
add Illumina 16S data analysis to tests
#86
eparejatobes
closed
8 years ago
7
Rename best BLAST hit
#85
eparejatobes
closed
7 years ago
4
General code review
#84
eparejatobes
closed
8 years ago
13
Review build definition
#83
eparejatobes
closed
8 years ago
1
Review preprint sources and see what needs to be updated
#82
eparejatobes
closed
8 years ago
10
Add @eparejatobes to maintaners
#81
eparejatobes
closed
8 years ago
0
Remove old paper sources
#80
eparejatobes
closed
8 years ago
4
add paper sources
#79
eparejatobes
closed
8 years ago
1
Switch to CSV for reference mapping
#78
laughedelic
closed
8 years ago
0
Test with the db.rna16s
#77
laughedelic
closed
8 years ago
6
Add a percentage suffix to percentage frequency headers in output
#76
eparejatobes
closed
8 years ago
3
Moar significant figures for percentages
#75
eparejatobes
closed
8 years ago
3
Improve output formatting
#74
laughedelic
closed
8 years ago
2
Fix reference map accumulation
#73
laughedelic
closed
8 years ago
0
Improve BBH evaluation algorithm
#72
laughedelic
closed
8 years ago
1
Make pident-filter configurable
#71
laughedelic
closed
8 years ago
5
Remove RNACentralDB dependency
#70
eparejatobes
closed
8 years ago
4
Report lineage in the first column in the count files
#69
marina-manrique
closed
8 years ago
2
Assignment to a set of taxas
#68
laughedelic
closed
8 years ago
10
Awesome MG7
#67
laughedelic
closed
8 years ago
2
Multiple reference DBs
#66
laughedelic
closed
8 years ago
2
add the average identity percentage to the counts
#65
eparejatobes
closed
8 years ago
5
Add a base Parameters trait, refine it for each dataflow type
#64
eparejatobes
closed
8 years ago
2
NoFlashDataflow lacks summary and stats
#63
eparejatobes
closed
8 years ago
9
Accumulated counting algorithm is inconsistent
#62
laughedelic
closed
8 years ago
5
Refine Blast filtering defaults for Illumina
#61
laughedelic
closed
8 years ago
8
Release 1.0.0-M3-fair-LCA-top-hits
#60
eparejatobes
closed
8 years ago
4
Output possible losses in assignment (id2taxa mapping or Bio4j lookup)
#59
laughedelic
closed
8 years ago
2
Keep only the top BLAST hits
#58
eparejatobes
closed
8 years ago
2
More Blast filtering for Illumina
#57
laughedelic
closed
8 years ago
4
Run assignment in parallel
#56
laughedelic
closed
8 years ago
1
Debug and fix stats/summary steps
#55
laughedelic
closed
8 years ago
0
Remove not-assigned outs
#54
laughedelic
closed
8 years ago
0
Use RNACentral lib for reference DBs
#53
laughedelic
closed
8 years ago
0
Resolve problems with the BLAST failures
#52
laughedelic
closed
8 years ago
2
Review default BLAST options
#51
laughedelic
closed
8 years ago
0
Add a check for the neccessary Blast output fields
#50
laughedelic
closed
8 years ago
0
Add minimal post-fitering of the BLAST results
#49
laughedelic
closed
8 years ago
2
Configure CSV writer to use unix line-endings
#48
laughedelic
closed
8 years ago
0
Fair LCA algorithm
#47
laughedelic
closed
8 years ago
1
Blast no-hits should output reads, not only headers
#46
laughedelic
closed
8 years ago
0
Change how BBH works
#45
laughedelic
closed
8 years ago
1
Configurable BLAST command
#44
laughedelic
closed
8 years ago
0
Update to fastarious 0.5.2
#43
eparejatobes
closed
8 years ago
0
Update to the fastarious version with the parsing bugfix
#42
laughedelic
closed
8 years ago
3
update to blast-api 0.5.1
#41
eparejatobes
closed
8 years ago
0
update to blast-api 0.5.0
#40
eparejatobes
closed
8 years ago
3
Update to the next release of Loquat
#39
laughedelic
closed
8 years ago
1
Configurable Blast results filtering
#38
laughedelic
closed
8 years ago
7
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