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philres
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ngmlr
NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations
MIT License
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calculate the identity of alignments
#63
LinXialab
closed
5 years ago
6
task terminated while did't report it
#62
suyanan
opened
5 years ago
0
max reported alignments per read?
#61
drfultz
opened
5 years ago
1
prevent read splitting/clipping
#60
gvic628
opened
5 years ago
4
ngmlr running problem
#59
Nickerson-Cool
opened
5 years ago
3
Overlap primary mapping
#58
biomichal
opened
5 years ago
1
A suggestion !
#57
xgnusr
opened
5 years ago
3
Do fastq per-base read qualities influence mapping?
#56
wtwhite
closed
5 years ago
2
Should l correct
#55
peflanag
opened
5 years ago
0
Secondary alignments
#54
Soniazumalave
closed
5 years ago
2
what are the exact parameters of the presets
#53
estolle
opened
6 years ago
3
Parameter for corrected PacBio reads ?
#52
ptranvan
opened
6 years ago
2
Bugs when mapping reads with number of CIGAR operations > 64k
#51
Archieyoung
opened
6 years ago
8
Only 14.03% reads mapped
#50
WeichenZhou
closed
6 years ago
13
base qualities in bam file are not reversed if read maps to the reverse strand
#49
mroosmalen
opened
6 years ago
3
min-residues argument parses all values as floats?
#48
jaclew
opened
6 years ago
6
Develop
#47
philres
closed
6 years ago
0
Issue when converting a SAM file into bam file after mapping with ngmlr-0.2.7
#46
ediezben
closed
6 years ago
13
rel3 nanopore wgs workflow
#45
ramcn
closed
6 years ago
2
Updating usage in README.md
#44
wdecoster
closed
6 years ago
1
RG option doesn't work as described
#43
ghannum
closed
6 years ago
20
Nanopore reference
#42
CN-Geminghui
closed
6 years ago
0
Update README.md
#41
dwinter
closed
6 years ago
1
Fix typo in log message
#40
wdecoster
closed
6 years ago
4
mapped and unmapped reads
#39
mictadlo
closed
6 years ago
1
Reduced number of processed reads
#38
wyzhangMPI
closed
6 years ago
0
Recommended parameters for detecting inversions
#37
ylipacbio
closed
6 years ago
1
Sort bam files generated by ngmlr
#36
woodoo46
closed
6 years ago
1
Add Read Group header
#35
dantaki
closed
6 years ago
3
With --bam-fix, write real long cigar at CG tag
#34
lh3
closed
7 years ago
2
NGM-LR output format - SAM/BAM tags
#33
mjjlou
closed
6 years ago
1
Apparently inaccurate alignment end positions in the "ont" mode
#31
lh3
closed
7 years ago
6
Overestimated mapping quality of the shorter piece in a split alignment
#30
lh3
opened
7 years ago
4
Aligning contigs from deNovo Assembly with ngm-lr
#29
mdkeehan
opened
7 years ago
3
CIGAR/MD buffer not long enough
#28
dkainer
closed
6 years ago
2
Error correction of PacBio reads
#27
Asutu
closed
7 years ago
1
Writing reference index to directory without writing permission: segmentation fault
#26
wdecoster
opened
7 years ago
3
Include input read filenames to log
#25
nathanhaigh
opened
7 years ago
1
Documentation for Progress Info
#24
nathanhaigh
closed
6 years ago
6
"Could not determine chromosome for interval." error
#23
skoren
closed
7 years ago
3
Bug in CMakeLists.txt: cmake does not appropriately throw error if (or opt for dynamic libraries) when static ZLIB missing
#22
mebbert
opened
7 years ago
3
install problem on Fedora 25
#21
jblamyatifremer
closed
7 years ago
4
Core dump on Ubuntu 16.04
#20
colindaven
closed
7 years ago
9
precompiled version of latest ngmlr for linux
#19
BenjaminSchwessinger
closed
7 years ago
1
Explaination of SV Tag?
#18
dantaki
closed
7 years ago
1
Segmentation fault on PacBio Data
#17
chad388
closed
7 years ago
3
Misses first 8kb of file when reading from /dev/stdin
#16
amwenger
closed
7 years ago
7
Documentation of custom SAM tags
#15
williamrowell
closed
7 years ago
4
Don't save reference index to disk
#14
philres
closed
7 years ago
0
NGMLR may produce non-deterministic MAPQ from run to run
#13
ylipacbio
closed
7 years ago
3
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