hall-lab svtools issues

hall-lab / svtools

Tools for processing and analyzing structural variants.

MIT License

147 stars 54 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

GT:CN ./.:309.986

#332 pingxinxing opened 1 month ago
0
[E::vcf_parse_format] Incorrect number of FORMAT fields at chrxxxx

#331 pingxinxing opened 3 months ago
0
vcftobedpe does not give strandedness for MANTA Outputs

#330 think-o opened 3 months ago
0
svtools copynumber:Can't find directory 'bin_1000'.

#329 pingxinxing opened 3 months ago
0
svtools lsort KeyError: 'CIPOS'

#328 hcsun1 opened 5 months ago
0
Assistance Needed with svtools lsort - No Output Generated

#327 karen916 opened 9 months ago
0
svtools afreq KeyError: 'SQ' in

#326 shameem356 opened 1 year ago
0
ValueError: max() arg is an empty sequence

#325 Hubuyan opened 1 year ago
0
bedpetovcf does not work with vcftobedpe output as input

#324 anoronh4 opened 2 years ago
1
svtools copynumber error *** Break *** segmentation violation

#323 cusanchang opened 2 years ago
0
Not able to convert vcf to bedpe (Manta output)

#322 Giuseppe1995 opened 2 years ago
0
sv_classifier.py crash at calc_params if no del in training data.

#321 jasonbhn opened 2 years ago
0
MEI annotations and list index out of range while classifying deletions

#320 jasonbhn closed 2 years ago
0
Resolve incompatible Python dependencies

#319 iainrb opened 2 years ago
0
possible bug in TRA conversion

#318 anoronh4 opened 2 years ago
0
Are lmerge same as l_merge.py scripts included in LUMPY?

#317 sulinq opened 2 years ago
0
lsort Index error

#316 stubbsrl opened 2 years ago
3
lmerge divide zero error

#315 genostack opened 2 years ago
2
Installation still fails due to conflicting pandas version

#314 Carina201000 opened 2 years ago
0
what is the difference between lmerge sum and prod algorithm ?

#313 genostack opened 2 years ago
0
pip install fails

#312 anoronh4 opened 3 years ago
2
Update vcftobedpe to support Delly 0.7.8 ouputs

#311 whelena opened 3 years ago
0
svtools vcfpaste error

#310 KrithikaSubramanian opened 3 years ago
2
No module named 'l_bp'

#309 Avramis opened 3 years ago
1
Python 3.6

#308 mike-molnar opened 3 years ago
0
vcftobedpe complains about no END field in LUMPY BNDs.

#307 jasonbhn opened 3 years ago
1
Genotyping skips insertions (INS)

#306 hellebaa opened 3 years ago
0
Does svtools support to mapping BEDPE to human genes?

#305 Shicheng-Guo opened 4 years ago
0
Syntax error msg

#304 nitha26 opened 4 years ago
0
I tried run smoove but encountered the error below with the exit status: 83

#303 MaoSihong opened 4 years ago
0
Installation fails due to conflicting pandas version

#302 NeolithEra opened 4 years ago
6
vcftobedpe's output has one-based START coordinates instead of one-based

#301 ManavalanG opened 4 years ago
1
Installation error with Pip because some packages rely on Python3

#300 shangshanzhizhe closed 4 years ago
2
merge error

#299 lee039 opened 4 years ago
2
Svtools classify BNDing most of the DELs

#298 brittanyhowell opened 4 years ago
1
svtools lsort

#297 marquispa closed 4 years ago
2
bedpetovcf crashes

#296 johnemajor opened 4 years ago
1
prune's RETAINED criteria

#295 pmonnahan opened 4 years ago
0
Svtools classify raising ValueError exception

#294 yachenhu opened 4 years ago
0
Svtyper, svtyper-sso and svtools genetype output discrepant genotypes

#293 yachenhu opened 4 years ago
0
updates for python3

#292 brentp opened 4 years ago
0
Running SV-tools across combined VCFs with multiple SV call types

#291 oalavijeh closed 4 years ago
1
Conda packaging no longer maintained

#290 apregier closed 5 years ago
1
Changes for release

#289 apregier closed 5 years ago
1
Clarification on classifier use and output

#288 edg1983 opened 5 years ago
0
Svtools copynumber error

#287 deepalivasoya opened 5 years ago
1
Updates for release

#286 apregier closed 5 years ago
1
build high confidence call set for training

#285 edg1983 closed 5 years ago
0
lsort sorting?

#284 jjfarrell closed 5 years ago
2
create_coordinates: accept bgzipped VCF as input

#283 dantaki closed 5 years ago
1