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biser
A fast tool for detecting and decomposing segmental duplications in genome assemblies
MIT License
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python -m biser -o Chr2.bed --max-error 0.2 --kmer-size 1000 -t 10 Chr2.fa
#44
jklFF
opened
1 week ago
0
contig level genome
#43
Hanjunmin
closed
5 months ago
0
Result issue
#42
IvanWoo22
opened
6 months ago
0
Decomposition ID format
#41
csmolen6136
closed
8 months ago
1
how to get those information from the output of Biser ?
#40
Shuixin-Li
opened
8 months ago
3
How to measure the length and frequency of Whole-Genome segmental duplications (SDs)?
#39
kuangzhuoran
closed
8 months ago
1
genotype same segdups across individuals
#38
svedwards
closed
8 months ago
1
need a positive control for BISER
#37
svedwards
closed
8 months ago
1
ask for help, the ERROR: BISER failed (-9):
#36
Jiangjiangzhang6
opened
10 months ago
2
Whether the number of contigs affects the efficiency of BISER
#35
life404
opened
11 months ago
1
How to filter the output BEDPE file?
#34
tiramisutes
closed
8 months ago
1
ERROR ：BISER failed (-11)
#33
jiangjiang030
closed
11 months ago
0
ERROR: BISER failed (-11):
#32
WHY0929
opened
1 year ago
2
elementary SDs and core SDs
#31
likui345
closed
1 year ago
1
How to run biser
#30
aravindpad
closed
1 year ago
7
Error in ERROR Putative SD alignment: '' BISER failed (-11): '' (BISER v1.4
#29
kuangzhuoran
closed
1 year ago
2
Cannot modify the max error value when running biser
#28
yangyxt
closed
1 year ago
3
how to decomposing segmental duplications (SDs) when i have the SDs annotation files.
#27
zhoudreames
closed
1 year ago
2
ERROR: BISER failed (-9):
#26
dorachu625
closed
1 year ago
2
biser failed -6
#25
jix2010
closed
1 year ago
3
Issue with building docker
#24
aravindpad
closed
1 year ago
4
BISER failing during putative alignment step
#23
docmanny
closed
1 year ago
1
BISER completed on soft_mask, but failed on hard_masked genome.
#22
Weikai-47
closed
1 year ago
1
biser v1.3 cannot accept any input files
#21
yangqimeng99
closed
1 year ago
2
biser long run time .
#20
ASBioinfo
closed
1 year ago
2
Bug fixes
#19
inumanag
closed
1 year ago
0
coordinate overlaps between pairs
#18
hrrsjeong
closed
1 year ago
1
Parametrization
#17
inumanag
closed
2 years ago
0
Codon compatibility
#16
inumanag
closed
2 years ago
0
It seems generate wrong alignment/CIGAR in bedpe results.
#15
yuanhao0626
closed
1 year ago
9
BISER failed:
#14
cicerocarlos-ufal
closed
2 years ago
2
core region length in the elem file
#13
hrrsjeong
closed
2 years ago
2
some cross-genome SD not found in "within genome" SD sets
#12
hrrsjeong
closed
2 years ago
3
Very long runtime, is it possible to resume a killed run?
#11
EinarBaldvin
closed
2 years ago
4
Does biser suitable for plant SD detection?
#10
Chenglin20170390
closed
2 years ago
3
the result of biser with ucsc T2T-CHM13 v2.0 different from the sedef result download from ucsc
#9
zou-yawen
closed
2 years ago
2
BEDPE fields in output
#8
saraebell
closed
2 years ago
1
mismatch rate
#7
hrrsjeong
closed
2 years ago
1
ERROR: BISER failed:
#6
002-two
closed
2 years ago
2
ERROR: __init__() got an unexpected keyword argument 'capture_output'
#5
Chenglin20170390
closed
2 years ago
11
I/O error Raised from: std.internal.file.File.__init__.3 [e] /home/vagrant/.seq/lib/seq/stdlib/internal/file.seq:14:13
#4
jmkidd
closed
2 years ago
4
install BISER (Error)
#3
saraebell
closed
2 years ago
7
Chaisson bug 2
#2
calkan
closed
3 years ago
1
Chaisson bug1
#1
calkan
closed
3 years ago
0