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EichlerLab
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pav
Phased assembly variant caller
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Error in rule vcf_write_vcf
#64
yue131
opened
1 month ago
19
Error in rule call_cigar
#63
GuillaumeHolley
opened
1 month ago
15
ModuleNotFoundError in /opt/pav/Snakefile
#62
GuillaumeHolley
closed
1 month ago
2
Question about SV calling consistency
#61
riyasj327
opened
1 month ago
8
missing reference?
#60
jeffchen2000
closed
1 month ago
2
apptainer run error
#59
jeffchen2000
opened
2 months ago
3
PAV stopping with Hangup message
#58
riyasj327
opened
2 months ago
6
could not download example data
#57
jeffchen2000
closed
1 month ago
2
'intervaltree' installed using pip install, but pav still complained as "No module named 'intervaltree' "
#56
chunlinxiao
opened
2 months ago
2
snakefile is using a wrong python version
#55
WeiCSong
closed
2 months ago
3
MissingInputException in native running
#54
dingyigithub
opened
2 months ago
6
Strange number of SVs from PAV2.3.4
#53
yangsui0122
closed
3 months ago
3
Error in rule call_merge_haplotypes_batch
#52
Milia1368
opened
7 months ago
7
Can PAV works in high het organisms?
#51
ghost
closed
3 months ago
1
Error in rule call_lg_discover: Contig ranges overlap for two alignment records after alignment trimming
#48
nidhi12k
closed
1 year ago
3
fix XDG_CACHE_HOME creation error in run script of docker
#44
aidenlx
closed
1 year ago
2
insertion and deletion from different chromosome
#43
chycheng2015
closed
1 year ago
1
Can >3M deletions be detected by PAV?
#42
yue131
closed
3 months ago
4
possible typo caught by latest pandas
#41
dgordon562
closed
1 year ago
2
ModuleNotFoundError in file ~/pav/Snakefile, line 66:
#40
yue131
closed
1 year ago
0
job suspend with no error information
#39
leon945945
closed
1 year ago
6
Error in json file format
#38
priyambial123
closed
1 year ago
4
Error in rule call_integrate_sources
#37
HideyukiMiyazawa
closed
1 year ago
6
Hard coded code block in run directive
#36
projectoriented
opened
1 year ago
6
Permission error using singularity image
#35
haraldgrove
closed
1 year ago
13
program shutting down with unknown reason
#34
yacai0412
closed
1 year ago
3
Detecion of DUP and BND
#33
jyw-atgithub
closed
1 year ago
3
Why the normal alignment block was partially cut out
#32
jxlabWzZ
closed
1 year ago
6
large Deletion >20 Mb
#31
bioinfogit
closed
1 year ago
5
distinction between missing .|1 and het 0|1 deletion
#30
bioinfogit
closed
1 year ago
2
keeping temp file option for singularity run
#29
bioinfogit
closed
1 year ago
3
OSError in "call_inv_batch" rule in long runs with multiple genomes
#28
svenwillger
closed
1 year ago
9
cannot run with LRA aligner
#27
xtan1221
closed
1 year ago
4
Option for calling SV independently
#26
VLoegler
opened
1 year ago
1
Module ply.lex not found using Singularity
#25
VLoegler
closed
1 year ago
3
Empty FASTA issue
#24
YahGao
closed
1 year ago
10
Update call_lg.snakefile
#23
PengJia6
closed
2 years ago
0
PAV running for > 9 days and is still running
#22
volcano1998
closed
2 years ago
4
CIGAR parsing error: Bad CIGAR op: N
#21
zou-yawen
closed
2 years ago
3
Allow specifying minimap2 params in config
#20
esrice
closed
2 years ago
0
enhancement: allow specifying minimap2 parameters in config
#19
esrice
closed
2 years ago
0
Bug in parsing the contig name
#18
LYC-vio
closed
2 years ago
2
HAP_AC column not present in dataframe
#17
esrice
closed
2 years ago
3
Missing input files for rule call_merge_lg
#16
zhixue
closed
2 years ago
2
Missing assembly table column: NAME
#15
zhixue
closed
2 years ago
2
Unrecognized strategy: nrsnv:exact
#14
esrice
closed
2 years ago
2
Fix tuple assignment bug (#12)
#13
esrice
closed
2 years ago
0
tuple item assignment error
#12
esrice
closed
2 years ago
2
Compatibility with Truvari / VCF header issue
#11
LYC-vio
closed
2 years ago
1
ModuleNotFoundError: No module named 'kanapy'
#10
harris-2374
closed
1 year ago
9
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