issues
search
grp-bork
/
gunc
Python package for detection of chimerism and contamination in prokaryotic genomes.
GNU General Public License v3.0
66
stars
8
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Low quality/low gene numbers faa input causes crash
#46
cschu
opened
2 weeks ago
0
Provide commands to create database file [Feature Request]
#45
chrisgulvik
opened
2 weeks ago
2
update databases which resolves #41 and resolves #43
#44
chrisgulvik
opened
2 weeks ago
0
Database update for gunc
#43
quliping
opened
7 months ago
1
GUNC diamond output filename
#42
jsgounot
opened
7 months ago
1
GUNC gene_counts.json file not found!
#41
kayobianco
opened
9 months ago
5
New GTDB database release
#40
pavlohrab
opened
9 months ago
2
Use .items instead of .iteritems, which is deprecated in pandas from v1.5.0 onwards.
#39
tmaklin
closed
10 months ago
1
Threshold CSS values when dealing with genomes in reference database
#38
mgabriell1
closed
1 year ago
4
Suppress deprecation warning from pandas
#37
nelsonruth11
closed
10 months ago
1
--use_species_level is not a better choice？
#36
nashanghenzan
closed
1 year ago
5
--use_species_level is not a better choice？
#35
nashanghenzan
closed
1 year ago
1
Command 'diamond --version' returned non-zero exit status 132
#34
sigau
closed
1 year ago
3
diamond error
#33
nashanghenzan
closed
1 year ago
4
Incompatibility with pandas 2.0
#32
SilasK
closed
10 months ago
2
Failed to run Diamond
#31
ahmedmagds
closed
1 year ago
4
apply GUNC to a large dataset of MAGs
#30
PatoUru
closed
1 year ago
1
Faster start up
#29
luispedro
closed
10 months ago
0
NAN in the output result
#28
zoubohao
opened
1 year ago
13
Use .items instead of .iteritems to suppress deprecation warning from pandas v1.5.0 or newer
#27
tmaklin
closed
1 year ago
0
Update database selection option in documentation
#26
akiledal
opened
2 years ago
0
false positives
#25
jhcuarta
closed
1 year ago
8
panda KeyError: 'contig'
#24
TianyiChang
closed
10 months ago
5
file_suffix flag
#22
Biofarmer
closed
1 year ago
24
Include "class" and "order" in contig assignment output file.
#21
aaronmussig
closed
10 months ago
0
Diamond parameters - max-target-seqs
#20
hjruscheweyh
closed
2 years ago
4
**conda install** no longer finds **diamond=2.0.4**
#19
fullama
closed
2 years ago
9
installation failure using conda
#18
ay-amityadav
closed
2 years ago
5
Use of `zgrep` is not portable across the conda/biocontainer ecosystem
#17
jfy133
closed
2 years ago
5
Compare gunc profiling with dbs progenomes and GTDB
#16
SilasK
closed
1 year ago
4
diamond looking for wrong faa file
#15
SheikGeomicro
closed
3 years ago
7
Identify contaminant contigs
#14
mw55309
closed
3 years ago
4
Cant download the database
#13
thh32
closed
3 years ago
3
Internal KeyError when processing externally generated gene calls
#12
jdwinkler-lanzatech
closed
3 years ago
7
Report potential contaminating contigs
#11
donovan-h-parks
closed
3 years ago
2
Documentation error
#10
cerebis
closed
3 years ago
1
import plotly.graph_objects
#9
Hocnonsense
closed
3 years ago
1
No genome2taxonomy_ref.tsv file
#8
smb20200615
closed
3 years ago
2
Error downloading DB
#7
michoug
closed
3 years ago
4
gunc download_db: gunc: error: the following arguments are required: -d/--database_file
#6
uloeber
closed
3 years ago
17
installation errors
#5
hexaquo
closed
3 years ago
3
Gunc merge_checkm file specification
#4
bsiranosian
closed
3 years ago
4
availability of the artificial genomes dataset
#3
ChiaraVanni
closed
3 years ago
4
Info/suggestions
#2
deoliveira86
closed
3 years ago
2
Minor issue: Unhelpful error when trying to download db into non-existing directory.
#1
dspeth
closed
3 years ago
2