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broadinstitute
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pilon
Pilon is an automated genome assembly improvement and variant detection tool
GNU General Public License v2.0
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Asymmetric mapping in two repeat areas
#121
YiweiZhu
opened
4 years ago
5
java.lang.ArrayIndexOutOfBoundsException: -5 ERROR
#120
francicco
opened
4 years ago
1
No output file or directory
#119
cmaggior
opened
4 years ago
4
pilon
#118
marjorie2205
closed
4 years ago
0
New htsjdk and options *-list
#117
SergejN
opened
4 years ago
2
Alternate genotype with no alternate allele in VCF output
#116
tatumdmortimer
opened
4 years ago
1
Pilon with 10x bam ( longranger )
#115
ViriatoII
opened
4 years ago
0
long runtime
#114
dcopetti
closed
4 years ago
3
a bam file contains single-end and paired-end reads
#113
lancer-lu
opened
4 years ago
1
Is it OK to run Pilon multiple times by adding shortreads?
#112
chelidphile
closed
4 years ago
0
bam doesn't have sequence
#111
emmannaemeka
opened
4 years ago
2
Exception in thread "main"
#110
Tdanis
closed
3 years ago
2
Not detecting 100bp insertion
#109
ybendana
opened
4 years ago
0
Runtime estimates
#108
henkela
opened
4 years ago
0
About the "diploid" option
#107
hungweichen0327
opened
4 years ago
0
Exception in thread "main" java.lang.ArrayIndexOutOfBoundsException:
#106
jhcaddisfly
opened
4 years ago
3
Exception in thread "main" java.lang.ArrayIndexOutOfBoundsException
#105
SvitlanaLukicheva
opened
4 years ago
1
Strand bias report
#104
carlosmag
opened
4 years ago
0
Disable CCxGG motif skipping for bacteria / PCR amplified DNA ?
#103
tseemann
opened
4 years ago
0
Exception in thread "main" java.lang.reflect.InvocationTargetException
#102
nsgarcia27
opened
4 years ago
1
How to get polished reads after Pilon has run?
#101
tayabsoomro
opened
4 years ago
3
Install/command not found?
#100
Firedrops
closed
5 years ago
1
use --targets but return complete input assembly (including non-polished regoins)
#99
dwinter
opened
5 years ago
0
No output after scanning BAMs
#98
NicMAlexandre
opened
5 years ago
2
Pilon spiking and using multiple cores on cluster
#97
swlong
opened
5 years ago
3
Support for CSI indices
#96
SergejN
opened
5 years ago
1
Error Exception in thread "main" java.lang.IllegalStateException: Inappropriate call if not paired read
#95
drs357
opened
5 years ago
1
marking reads duplication before pilon running
#94
baoxingsong
opened
5 years ago
1
pilon fails on Falcon unzip assemblies
#93
dgordon562
opened
5 years ago
0
Hard-coded memory
#92
CristianRiccio
opened
5 years ago
1
pilon running error
#91
emmannaemeka
opened
5 years ago
2
obtain gfa after polishing
#90
MChiaraC
opened
5 years ago
0
Error Pilon - Array
#89
KristinaGagalova
opened
5 years ago
1
--targets list reading error
#88
KristinaGagalova
opened
5 years ago
2
Multimapped read behaviour
#87
francicco
opened
5 years ago
0
Best practices - Is it necessary to use trimmed illumina reads as input for polishing?
#86
elor77
opened
5 years ago
0
pilon for rna-seq
#85
manuelsmendoza
closed
4 years ago
2
java.lang.ArithmeticException: / by zero
#84
MichelMoser
closed
5 years ago
1
unknown option --nanopore
#83
MichelMoser
opened
5 years ago
0
The error caused by the Xxm**G setting problem, the existence of two types of errors
#82
Hongchang-Gu
opened
5 years ago
2
Problem polishing deletion in polynucleotide run with heterozygosity
#81
zephyris
closed
5 years ago
1
negative effect of using only PE reads with --fix all
#80
mictadlo
closed
5 years ago
1
Deeply sequenced sample -- can it be downsampled before running pilon to improve running times?
#79
lfaller
closed
5 years ago
1
Possible to set minimum indel length for correction?
#78
rorycraig337
opened
5 years ago
1
Question about --diploid parameter flag
#77
chad388
closed
5 years ago
1
Handling of single "N" characters in reference genome
#76
ewilbanks
opened
5 years ago
1
Error in main
#75
dUmich
closed
5 years ago
1
mapping tool
#74
jdmontenegro
closed
5 years ago
1
Inappropriate call if not paired read?? what??
#73
zapataf
closed
5 years ago
1
Pilon running error
#72
Jung19911124
closed
5 years ago
1
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