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brentp
/
smoove
structural variant calling and genotyping with existing tools, but, smoothly.
Apache License 2.0
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smoove paste error for DEL
#244
olivia-gc
opened
3 days ago
1
smoove call for tumor/normal pairs
#243
TLyan-ze
opened
4 days ago
2
export SMOOVE_MAX_DEPTH=20000 doesn't work
#242
yqlan
closed
2 weeks ago
1
how is option '--support' (mininum support required to report a variant) defined?
#241
yqlan
opened
2 weeks ago
0
does smoove take other sv caller genotypes into account?
#240
olivia-gc
opened
1 month ago
1
Outdated version of bcftools in dockerfile: "Unsorted positions", position 0 vs. 4294967296
#239
bartgrantham
opened
3 months ago
0
svtyper: error: unrecognized arguments: --max_ci_dist 0 error
#238
shaghayeghsoudi
closed
5 months ago
1
library error in smoove
#237
poddarharsh15
opened
5 months ago
4
issue with installation smoove via conda
#236
Ana1335
closed
6 months ago
4
only histo file outputs from smoove call
#235
Ana1335
opened
6 months ago
5
lumpy_filter not on $PATH
#234
Sreelekshmi-291
opened
7 months ago
1
Failed to open -: unknown file type, panic
#233
lilymaya
opened
7 months ago
5
A bug when installing smoove with conda
#232
Ceonham
closed
8 months ago
4
smoove paste error
#231
ygwang1
opened
8 months ago
5
smoove genotype - could not import: bam_hdr_destroy
#230
heidihyang
opened
9 months ago
3
Multiple issues
#229
carsonhh
opened
9 months ago
0
Why REF = N?
#228
robertzeibich
opened
10 months ago
1
`--name` parameter does not work
#227
bounlu
closed
10 months ago
3
fixed typo
#226
bounlu
closed
10 months ago
0
When I use smoove annotate, I just receive a MSHQ/SHQ of -1
#225
robertzeibich
opened
10 months ago
12
using multiple bams from same sample - does not finish running & trims the sequencing run number from the sample name
#224
heidihyang
closed
10 months ago
1
pre-processing for split & discordant read-pairs?
#223
heidihyang
closed
11 months ago
1
smoove call fails immediately with Panic: unexpected EOF
#222
Ax3man
opened
11 months ago
2
【need help】An error occurred when running to Merge
#221
SolarQuiltc
opened
11 months ago
2
Polyploidy
#220
goeckeritz
opened
12 months ago
3
Different genotype of SV for the same sample in different batch
#219
lemon-latte
opened
1 year ago
0
panic: open /path/to/*.bam: no such file or directory
#218
Gummy89
closed
1 year ago
2
Run smoove for single sample?
#217
karoliinas
closed
1 year ago
4
No INS records
#216
zhixue
closed
1 year ago
1
non-SV filtering
#215
torakichi1219
opened
1 year ago
2
sanity checks for sorted and RGs
#214
hemstrow
opened
1 year ago
1
Docker image missing svtyper
#213
mcv053
opened
1 year ago
0
samtools index: failed to create index for *mybamfile* panic: exit status 1
#212
FrancescaMiccolis
closed
1 year ago
1
bcftools: error while loading shared libraries: libopenblas.so.0: cannot open shared object file: No such file or directory > gsort version 0.1.4
#211
FrancescaMiccolis
closed
1 year ago
2
missing pair end parameters:mean stdev
#210
distilledchild
closed
1 year ago
1
[smoove] 2022/11/15 10:20:53 starting with version 0.2.8 [smoove] 2022/11/15 10:20:53 lumpy executable not found in PATH
#209
assane-mbodj
closed
1 year ago
2
smoove calls huge number of calls
#208
Manuelaio
closed
1 year ago
2
runtime: failed to create new OS thread
#207
asylvz
closed
1 year ago
4
Question about Exclude region
#206
hayeon-pak
closed
1 year ago
3
lumpy filter remove too much reads
#205
yefanglee
opened
1 year ago
6
smoove duphold error
#204
prasundutta87
opened
1 year ago
3
important_regions bed
#203
skose82
closed
1 year ago
2
Error while running smoove call: panic: sam: reference already used
#202
Giuseppe1995
opened
1 year ago
5
Error while running smoove genotype: "panic: fork/exec $PATH/bin/svtyper: too many open files"
#201
Giuseppe1995
closed
1 year ago
4
Smoove not working !!!!!! Failed to read from standard input: unknown file type panic: write |1: broken pipe
#200
mansi800
opened
1 year ago
5
Smoove Call panic exit segmentation violation followed by unknown file type
#199
mrburke00
closed
1 year ago
2
panic:gzip: invalid header
#198
gaom001
opened
2 years ago
8
panic: sam: duplicate program name: line 3430: "@PG\tID:SAMBLASTER\tVN:0.1.24\tCL:samblaster -i dummy.cram.readsorted.sam -o dummy.cram.samblster.sam --addMateTags"
#197
AlecBayliff
opened
2 years ago
4
Error reading index file from S3 bucket
#196
james-guevara
opened
2 years ago
2
"Missing pair end parameters:mean stdev" and histo files are empty.
#195
ggoodstudydaydayup
closed
2 years ago
8
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