issues
search
agshumate
/
Liftoff
An accurate GFF3/GTF lift over pipeline
GNU General Public License v3.0
427
stars
52
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
UnboundLocalError
#175
pdoris
opened
3 weeks ago
1
stay in "Running ANALYZE features" for a long time
#174
riguangQiu
opened
1 month ago
1
Trouble with installation
#173
danatlin
opened
1 month ago
1
ERROR："sqlite3.OperationalError: disk I/O error"
#172
Bank-tidy
opened
1 month ago
1
UnboundLocalError: local variable 'feature_db' referenced before assignment
#171
antss8
opened
1 month ago
1
Recommendation for species relatedness?
#170
14zac2
opened
1 month ago
0
help with error message from running liftoff
#169
amberdeja
opened
4 months ago
1
sample files liftoff
#168
ghost
closed
4 months ago
0
Liftoff doesn't find all the features in the target from the reference in one go
#167
LiaOb21
opened
4 months ago
0
GFF does not contain any gene features. Use -f to provide a list of other feature types to lift over.
#166
zgb963
opened
6 months ago
4
KeyError: " during aligning features
#165
avramiaharonoff
opened
7 months ago
2
lifting off genes from large inversion
#164
bijendrabio
opened
7 months ago
0
Liftoff is running so slow
#163
yeeus
closed
5 months ago
4
Problems with running Liftoff on HPC environment
#162
zgb963
opened
8 months ago
4
Error when specifying parameters for -mm2_options
#161
Hazelhuangup
opened
8 months ago
0
ValueError: fetch called for htsfile without header
#160
Zazzyre
closed
8 months ago
1
Liftoff pip install fails
#159
aravindpad
opened
9 months ago
1
liftofftools with output from liftoff -copies
#158
kiekyon
opened
9 months ago
0
Missing genes not in unmapped_features.txt
#157
14zac2
opened
11 months ago
2
option for reference sequence
#156
wbsimey
opened
11 months ago
0
Polish option still introduces stop codon
#155
johannesnicolaus
opened
1 year ago
0
Install error
#154
Neo-xbx-00
opened
1 year ago
4
Consider changing manual installation instructions to reflect deprecation of setup.py
#153
alh38
opened
1 year ago
0
Add frame field to lifted features
#152
berilerdogdu
closed
1 year ago
0
keyError: 'intersectin' when parsing alignments
#151
hchen15-amgen
closed
1 year ago
1
Increase of size of exons in new annotation created by liftoff
#150
sven0schuierer
opened
1 year ago
0
Check for in-frame stops even if a gene is incomplete
#149
tomasbruna
opened
1 year ago
1
Documentation Syntax
#148
thomns
opened
1 year ago
0
Excessive memory usage with the polish option
#147
tomasbruna
opened
1 year ago
0
Inconsistant transfer
#146
gdroc
opened
1 year ago
0
Installation with conda and pip fails
#145
jcchacond
opened
1 year ago
2
Error running liftoff
#144
dgray-csun
opened
1 year ago
0
Liftoff for non-coding genes?
#143
zmz1988
opened
1 year ago
1
Incorrect GFF/GTF syntax on line 5r relations: 0 features
#142
Naveen-kumar-Pandey
closed
5 months ago
1
installation problem
#141
garfring
closed
1 year ago
0
Using Liftoff for gene annotation
#140
suyeonwy
opened
1 year ago
0
undocumented attributes
#139
diekhans
opened
1 year ago
0
Issue with mapping
#138
genewlan
opened
2 years ago
2
how long it takes to finish a job (100 000 features)? I stay at a surface about 2 hours
#137
genewlan
closed
2 years ago
2
GFF3 output CDS records do not contain phase
#136
diekhans
closed
1 year ago
5
Error running analyze features
#135
fishercera
opened
2 years ago
6
docs suggestions to help with frequent problems
#134
colindaven
closed
2 years ago
0
Syntax warning fix
#133
diekhans
closed
2 years ago
0
upgrade pysam to 0.19.1
#132
diekhans
closed
2 years ago
0
pip install fails in PYSAM
#131
diekhans
closed
2 years ago
1
python3.10 not compatible with pysam 0.16.0.1
#130
jowodo
opened
2 years ago
3
running liftoff on cluster
#129
johnathanlo
closed
2 years ago
1
ERROR: failed to open file '5': No such file or directory
#128
robertwhbaldwin
opened
2 years ago
3
Issue with running Liftoff
#127
dalila-de
opened
2 years ago
7
FileNotFoundError: [Errno 2] could not open alignment file `intermediate_files/reference_all_to_target_all.sam`: No such file or directory
#126
rkadrian
closed
2 years ago
2
Next