philres ngmlr issues - Githubissues

philres / 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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issues

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SKBR3 alignment: SRR7346978

#113 MJoseMo opened 2 weeks ago
0
circular reference genomes

#112 meono opened 1 month ago
0
Questions on loading fastq.gz, and output.sam

#111 rl4940 opened 3 months ago
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Difference between SUPPORT, DV and RNAMES

#110 kamilafras closed 4 months ago
0
ngmlr stops using cpu and runs infinitely

#109 snm32 opened 8 months ago
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Update README.md

#108 pesho-ivanov opened 8 months ago
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comparing large genomes

#107 mrwangyz opened 1 year ago
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Length of read not equal length of quality values

#106 lunky-zao opened 1 year ago
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Maybe I find a new bug about RG option

#105 yshcai opened 2 years ago
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ONT preset values are commented out in code. Why?

#104 TimD1 opened 2 years ago
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Optional SAM flags

#103 davidvho opened 2 years ago
0
running long jobs

#102 bkallow opened 3 years ago
0
New github release?

#101 nileshpatra opened 3 years ago
0
ilog.h: Added VA_OPT to avoid preprocessor error for VA_ARGS

#100 smoe opened 3 years ago
0
Two typos

#99 smoe opened 3 years ago
0
README.md: consistent spelling of PacBio

#98 smoe closed 3 years ago
0
Segmentation fault

#97 zjwang6 opened 3 years ago
2
Fix for "Signed Integer Overflow in MAPQ"

#96 monsanto-pinheiro closed 3 years ago
3
Signed Integer Overflow in MAPQ Computation

#95 paudano opened 3 years ago
1
segmentation fault using ngmlr 0.2.7

#94 lentil824 opened 3 years ago
13
New user questions

#93 ChristopherRichie opened 3 years ago
0
Error in `ngmlr': double free or corruption (!prev): 0x00002aaed8eeb910

#92 MikeWLloyd opened 3 years ago
4
--bam-fix and cs tag

#91 sjin09 closed 3 years ago
2
Long runtimes (> 3 days) with PacBio data expected or indicative of a problem?

#90 BrianSanderson closed 9 months ago
1
[A SOLUTION TO] => samtools issue : incomplete aux field/truncated file

#89 RemiMaglione opened 4 years ago
2
PacBio: ccs/hifi-reads or filtered subreads?

#88 MrTomRod closed 4 years ago
3
Convex Gap-cost alignment

#87 csuzhang opened 4 years ago
0
NGMLR with samtools 1.10 and 1.11

#86 marcotoffoli opened 4 years ago
5
support for aarch64

#85 t-nojiri opened 4 years ago
1
Indel alignment

#84 shimbalama opened 4 years ago
4
MAPQ of -2147483648 attributed to some reads in samfile (minimum value for an int32)

#83 OmarOakheart opened 4 years ago
1
incomplete aux field and negative mapq?

#82 kautto closed 4 years ago
3
do wrong parameters on -x sequencing technologies affect on alignment results?

#81 holiday10 closed 4 years ago
1
Error when converting sam file to bam

#80 Arfourie closed 4 years ago
3
mapping quality

#79 Wuxy96 opened 4 years ago
1
Soft clipping and read splitting

#78 shimbalama opened 4 years ago
1
possible conflict of encoded reference file

#77 zhixingfeng closed 4 years ago
2
Mapping to repeats leads to deletions with low allele frequency

#76 flashton2003 opened 4 years ago
6
Parse error at line

#75 marcotoffoli opened 4 years ago
19
Read index

#74 shimbalama closed 4 years ago
3
ngmlr version 0.2.8

#73 Wuxy96 closed 4 years ago
2
Tag NM in SAM

#72 Wuxy96 closed 4 years ago
1
differences between ONT and PacBio data

#71 Wuxy96 closed 5 years ago
3
NGMLR very slow on bovine nanopore reads

#70 sdjebali opened 5 years ago
2
PacBio: NGMLR slows from 110 reads-mapped/s to ~1 reads-mapped/s on last million reads

#69 matthale16 opened 5 years ago
0
Reporting >30kb deletion in ONT data

#68 vhfsantos closed 5 years ago
2
Remove last trace of seqan

#67 Millak opened 5 years ago
0
not initialized variable may cause panic in some OS

#66 tsjsdbd opened 5 years ago
2
NGMLR carshes with Aborted (core dumped)`

#65 harmeet1990 opened 5 years ago
0
meaning of no-lowqualitysplit option

#64 LeaveYeah opened 5 years ago
0