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arq5x
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lumpy-sv
lumpy: a general probabilistic framework for structural variant discovery
MIT License
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Lumpyexpress memory issue
#399
jordimaggi
opened
2 weeks ago
0
how are the options '-m', '-mw' and '-msw' defined?
#398
yqlan
opened
2 months ago
0
windows for lumpyexpress
#397
licongge
opened
3 months ago
0
run lumpy without speedseq
#396
RafigaM
opened
3 months ago
0
Makefile - update BamTools to compile
#395
DavidStreid
opened
5 months ago
0
Input BAM file not found
#394
espelpz
opened
6 months ago
0
Missing pair end parameters:bamfile, histo_file, mean, stdev, read_length, min_non_overlap, discordant_z
#393
psardana22
opened
6 months ago
0
Lumpyexpress produces zero INS and CNV
#392
changhan1110
opened
1 year ago
1
Error reporting about 'make'
#391
zhaobinkai
opened
1 year ago
2
lumpy ::claimsto be version (v 0.2.13)
#390
EricDeveaud
opened
1 year ago
0
Can't find first and/or second of pair in sam block of length 2
#389
jonahcullen
opened
1 year ago
0
ERROR in lumpyexpress -n: command not found; [: ==: unary operator expected
#388
ClarenceHsiang
opened
1 year ago
5
File "/ME/alignment/lumpy-sv//scripts/bamkit/bamlibs.py", line 61 print ','.join(lib_rg[lib]) ^ SyntaxError: invalid syntax
#387
1580542426
opened
1 year ago
1
[E::idx_find_and_load] Could not retrieve index file for '-'
#386
liujiaxin7
opened
1 year ago
1
about out file
#385
linshengnan09
opened
1 year ago
0
make compile error
#384
sjads
opened
1 year ago
5
parameter required for mean
#383
J-Bradlee
opened
2 years ago
0
lumpy returns more than expected variants
#382
anoronh4
opened
2 years ago
0
BAM files must be coordinate sorted
#381
gneedle1
opened
2 years ago
1
Add batchx code
#380
idelvall
closed
2 years ago
0
Error: -B is required
#379
khalidanaveed
opened
2 years ago
0
some errors when do "make"
#378
gaom001
opened
2 years ago
1
Meaning of SU
#377
jsha129
closed
2 years ago
2
LUMPY SV caller on Low coverage WGS
#376
felipeluz97
opened
2 years ago
0
Can I get the copy number information?
#375
hayeon-pak
closed
2 years ago
2
SV length
#374
cfz1998
closed
2 years ago
0
Output BAM with tags to associate reads back to SV calls?
#373
nh13
opened
2 years ago
1
Lumpy applicability
#372
anleopa
opened
2 years ago
3
[E]lumpy-filter,error running command: set -eu;
#371
anxuan-web
opened
2 years ago
2
lumpyexpress exited with "Could not retrieve index file for '-'"
#370
Ceonham
opened
2 years ago
5
bam from samtools view -F 1294 is larger than bam from speedseq or
#369
liuhankui
opened
2 years ago
3
Use of lumpy in haploid organisms
#368
pabloangulo7
opened
2 years ago
3
Question: construct contig that minimizes SVs
#367
JohnUrban
opened
2 years ago
0
GT are all ./.
#366
meqili
closed
2 years ago
2
To solve the problem of samtools errors like this : “samtools view: writing to standard output failed: Broken pipe; samtools view: error closing standard output: -1 ”
#365
ghost
closed
2 years ago
0
where could i get hexdump?
#364
kztyes
opened
2 years ago
0
lumpysxpress SyntaxError in input bam
#363
pedoman-GitHub
opened
3 years ago
0
only use discordant reads
#362
Yiguan
opened
3 years ago
2
lumpy Ouput vcf file
#361
u1200538
opened
3 years ago
1
lumpy not calling CNV
#360
kghimire09
opened
3 years ago
0
lumpyexpress error
#359
assane-mbodj
opened
3 years ago
3
why there's SV that all samples showing reference allele
#358
shuiyanwu778
opened
3 years ago
5
Installation problem on mac Big sur
#357
kghimire09
opened
3 years ago
3
docs: specify whether output coordinates are 0 or 1 based
#356
amcpherson
opened
3 years ago
4
Use single-end reads aligned with bwa-aln
#355
jcchacond
opened
3 years ago
1
segment fault
#354
dfguan
opened
3 years ago
0
Changing RG:Z flag in merged bam before lumpy
#353
markutz556
closed
3 years ago
0
Changing RG:Z flag when using merged bam files as input to lumpy
#352
markutz556
opened
3 years ago
0
genome file in bedpe_sort.py
#351
nitinra
closed
3 years ago
0
Number of split reads supporting the variant is always 0
#350
yasin-uzun
opened
3 years ago
18
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