phac-nml sistr_cmd issues

phac-nml / sistr_cmd

SISTR (Salmonella In Silico Typing Resource) command-line tool

Apache License 2.0

24 stars 9 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Push v1.1.2 to bioconda?

#58 russellsmithies closed 6 months ago
3
Discrepant results between similar Salamae genomes

#57 flashton2003 opened 1 year ago
1
Question about result output meanings (serovar, serovar antigen, serovar cgmlst)

#56 Dogrinev opened 1 year ago
0
Some of Paratyphi A serogroup were assigned as "D1" in SISTR

#55 Wang-Jing-NZ opened 2 years ago
0
error

#54 kdyoung100 opened 2 years ago
2
IndexError: index 0 is out of bounds for axis 0 with size 0

#53 sheikki opened 2 years ago
2
O51 antigen prediction issues and 35|O51 wzx allele in SISTR v1.1.1 database

#52 kbessonov1984 opened 2 years ago
0
Updated location of SISTR database URL

#51 apetkau closed 2 years ago
9
choosing between sistr prediction and refseq match

#50 vappiah opened 2 years ago
1
Check D1 and D2 serogroup predictions being accurate

#49 kbessonov1984 opened 3 years ago
0
move EmptyDataError to pandas.errors

#48 jameslz closed 3 years ago
6
Galaxy workflow for SISTR v1.1.1 supporting batch processing from raw reads to reports

#47 kbessonov1984 closed 3 years ago
2
Serotyping a genome with mixed strains of Salmonella

#46 vappiah closed 3 years ago
3
No reference gnome for SISTR hIT

#45 vappiah closed 3 years ago
4
SISTR v1.1.1 is not compatible with pandas >= 1.1.0 due to failed EmptyDataError exception import

#44 kbessonov1984 closed 3 years ago
3
Added blast sorting by bitscore for cgMLST allele calling

#43 apetkau closed 4 years ago
0
Version 1.1.0 or 2.0

#42 andersgs closed 4 years ago
1
"sistr" running time benchmark

#41 npavlovikj closed 4 years ago
2
Sistr/updates for release

#40 apetkau closed 4 years ago
1
ImportError: Can't determine version for tables

#39 Siacm closed 5 years ago
2
Add testing coverage for SISTR codebase

#38 jrober84 opened 5 years ago
0
Doc/database non gitlfs

#37 apetkau closed 4 years ago
1
Error when mash distance is 1

#36 Piplopp closed 5 years ago
1
Sistr cmd update 2018

#35 jrober84 closed 4 years ago
6
Different cgMLST types depending on version of BLAST

#34 apetkau closed 4 years ago
15
Sistr cmd database update 2018

#33 jrober84 closed 5 years ago
3
Repeated flagellar antigen in both H1 and H2

#32 jrober84 closed 4 years ago
0
Duplicated records in fliC DB.

#31 andersgs closed 4 years ago
1
problem in wzx.fasta

#30 alantsangmb closed 5 years ago
2
contrary wzx wzy predictions

#29 alantsangmb closed 5 years ago
4
Wandsbek salamae isolate

#28 andersgs closed 4 years ago
1
Better monophasic prediction

#27 peterk87 closed 4 years ago
1
sistr_cmd consistently drops one genome from output tables

#26 sabrinadiemert closed 6 years ago
3
Decouple SISTR database from sistr_cmd

#25 peterk87 closed 4 years ago
1
QC warning if the overall serovar call is to a serovar with less than X number of reference genome representatives

#24 peterk87 opened 6 years ago
0
Report number of cgMLST loci found in summary results

#23 peterk87 closed 4 years ago
0
partial H2FljB match

#22 alantsangmb closed 6 years ago
6
error：string index out of range

#21 chen1i6c04 closed 6 years ago
2
sistr command not recognised

#20 tom-van-wijk closed 6 years ago
2
ERROR when using --no-cgmlst

#19 Aron-github closed 7 years ago
2
Multiple instances of SISTR on same machine can interfere with each other

#18 apetkau closed 7 years ago
4
ERROR: Missing cgmlst_results

#17 arif-tanmoy closed 6 years ago
3
OSerror when running sistr

#16 tom-van-wijk closed 7 years ago
4
WANTED: Salmonella genomes with trustworthy serovar info!

#15 peterk87 opened 7 years ago
2
Dev

#14 peterk87 closed 7 years ago
0
fix #12

#13 peterk87 closed 8 years ago
0
Which command to use?

#12 andersgs closed 8 years ago
1
Pip install does not work

#11 andersgs closed 7 years ago
2
which should I select? mash_serovar or serovar?

#10 JeanGuy777 closed 8 years ago
2
pip install does not work

#9 tseemann closed 8 years ago
2