bowmanjeffs paprica issues

bowmanjeffs / paprica

paprica - PAthway PRediction by phylogenetIC plAcement

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issues

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No output of Pathway and SUM_pathway file

#101 angelwyc closed 1 week ago
4
Clear FutureWarnings that emerge in pandas > 2.0

#100 bowmanjeffs opened 5 months ago
0
Issue with paprica-combine_results.py

#99 nkhadland closed 5 months ago
13
Update paprica-combine_results.py

#98 bklempay closed 6 months ago
0
Issues with Running ./paprica-run.sh on test.fasta

#97 angelwyc opened 6 months ago
1
The “fake” database seems to be incomplete

#96 masikol opened 1 year ago
2
notify user about existing files

#95 RJ333 opened 1 year ago
2
unambigously specify user for the linux install script

#94 RJ333 closed 1 year ago
1
gRodon improvements

#93 bowmanjeffs closed 1 year ago
0
Error: HMM banded truncated alignment mxes need 1392.25 Mb > 1028.00 Mb limit

#92 Ql-cy closed 2 years ago
9
OTUs missing in edge_data file

#91 cwatt closed 2 years ago
5
removal of chloroplasts and mitochondria

#90 bowmanjeffs opened 3 years ago
0
Added Dockerfile

#89 gasperpetelin closed 3 years ago
0
Docker/Singularity support

#88 gasperpetelin closed 3 years ago
6
FileNotFoundError: [Errno 2] No such file or directory: 'test.bacteria.phylum_reps.edpllist.csv'

#87 lee-s17 closed 3 years ago
6
Potential problem with test.bacteria.phylum_reps

#86 PaulTillich closed 3 years ago
3
Proper citation forwarding

#85 lczech closed 3 years ago
6
better selection of random reps

#84 bowmanjeffs closed 3 years ago
0
new workflow

#83 bowmanjeffs opened 3 years ago
0
poor read placement to master tree

#82 bowmanjeffs closed 3 years ago
1
duplicate unique reads

#81 bowmanjeffs closed 3 years ago
1
branch_length should be be parsed from jplace

#80 bowmanjeffs opened 3 years ago
0
placements to phylum_ref don't appear in taxon map

#79 bowmanjeffs opened 3 years ago
0
Error running paprica

#78 eperezv closed 3 years ago
20
placements to phylum ref with n = 1

#77 bowmanjeffs opened 3 years ago
0
Error running test

#76 lee-s17 closed 3 years ago
1
ptools v24 issues

#75 bowmanjeffs closed 3 years ago
0
Association of pathways and enzyme with edges

#74 avishekdutta14 closed 4 years ago
0
Implementation of epa-ng doesn't allow for multiple threads

#73 elijthomas closed 4 years ago
5
problem with infernal when running ./paprica-run.sh test bacteria

#72 lottedemaeyer closed 4 years ago
2
Error running ./paprica-run.sh

#71 chongchunwie closed 4 years ago
5
Single edn reads preprocessing

#70 roman-spanek closed 4 years ago
2
analyzing edge_data

#69 GucciBawler closed 4 years ago
1
error when running ./paprica-mg_run.py

#68 ajiwahyu closed 4 years ago
9
SettingWithCopyWarning: harmless or a bigger problem?

#67 Gustius closed 5 years ago
1
Wrong argument in make_edge_fasta.py?

#66 Gustius closed 5 years ago
1
euk draft genomes

#65 bowmanjeffs closed 3 years ago
0
Epa ng

#64 bowmanjeffs closed 5 years ago
0
parallelize cmscan

#63 bowmanjeffs closed 5 years ago
0
fix the way to find real paprica_path

#62 pbordron closed 5 years ago
0
How to obtain parent taxonomy level for metabolic pathways?

#61 roman-spanek closed 5 years ago
1
"[Name].combined_16S.bacteria.tax.clean.align.csv does not exist" error

#60 sturne29 closed 5 years ago
11
add a setup.py and upload to pypi

#59 nick-youngblut closed 3 years ago
3
fasta for unannotated reads

#58 bowmanjeffs opened 6 years ago
0
integrate orthoMCL to define meaningful groups of CDS

#57 bowmanjeffs closed 3 years ago
0
paprica did not work

#56 ghost closed 6 years ago
1
use STAR for alignment

#55 bowmanjeffs closed 5 years ago
0
error when identical draft and final 16S sequence

#54 bowmanjeffs opened 6 years ago
0
look for most recent PGDB version

#53 bowmanjeffs closed 5 years ago
0
assigning enzyme names to E.C numbers

#52 garimaraj closed 7 years ago
4