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hartwigmedical
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hmftools
Various algorithms for analysing genomics data
GNU General Public License v3.0
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Dev 2919: PEACH JAVA review
#358
DFKoetsier
closed
3 months ago
1
linx_v1.23.1.jar cytoBands.37.tsv and cytoBands.38.tsv files: Header problems
#357
toddajohnson
closed
1 year ago
2
complied jar file request: cider v0.5
#356
YingYa
closed
1 year ago
2
PROMISCUOUS_ENHANCER_TARGET TERT fusions and known_fusions.38.bedpe
#355
toddajohnson
closed
1 year ago
1
PROMISCUOUS_ENHANCER_TARGET TERT fusions with intergenic regions can crash Linx visualizer
#354
toddajohnson
closed
1 year ago
4
PROMISCUOUS_ENHANCER_TARGET requires 5'- donor segment to be within a gene?
#353
toddajohnson
closed
1 year ago
6
Exception in thread "main" java.lang.OutOfMemoryError: Java heap space
#352
FrancescaMiccolis
closed
1 year ago
3
LINX clusters for patients
#351
micoli98
closed
1 year ago
1
purple initialisation error
#350
lichennan123
closed
1 year ago
8
How I can cite sage that I used for variant calling
#349
maitnnguyen
closed
1 year ago
1
Bump htsjdk from 2.23.0 to 3.0.1
#348
dependabot[bot]
closed
8 months ago
1
Hotspot VCF - transcript as null
#347
dmaziec
closed
1 year ago
2
Bump pillow from 8.2.0 to 9.3.0 in /cuppa/src/main/resources/cuppa-chart
#346
dependabot[bot]
closed
8 months ago
1
Error with sv_prep
#345
insilicool
closed
1 year ago
3
More questions about Cuppa
#344
senzhaocode
closed
1 year ago
2
Purple step error and Linx
#343
FedericaBrando
closed
1 year ago
3
A failure to run PROTECT
#342
senzhaocode
closed
1 year ago
2
gnomad variant file for Pave step in pipeline
#341
FedericaBrando
closed
1 year ago
4
Isofox: supplementary reads causing java.lang.NullPointerException
#340
scwatts
closed
1 year ago
3
BAF outputs
#339
asd1289
closed
1 year ago
2
Compatability of Linx with other mutation callers
#338
dominikglodzikhms
closed
1 year ago
1
Cuppa
#337
senzhaocode
closed
1 year ago
1
Stuck PAVE process
#336
toddajohnson
closed
1 year ago
4
GRIPSS chromosome ranking error (java.lang.NumberFormatException)
#335
scwatts
closed
1 year ago
2
Linx SV driver suggestion
#334
toddajohnson
closed
1 year ago
2
sv-prep read processing fails when encountering DRAGEN supplementary alignments
#333
scwatts
closed
1 year ago
2
GRIPSS 2.3: fatal exception when parsing non-chromosome contigs
#332
toddajohnson
closed
1 year ago
1
AMBER Implementaion
#331
ZWael
closed
1 year ago
4
SVVisualizer and cytoBands.txt file (only for hg19...?)
#330
toddajohnson
closed
1 year ago
2
Linx 1.21 com.hartwig.hmftools.linx.visualiser.SvVisualiser [FATAL] error
#329
toddajohnson
closed
1 year ago
6
typo in COBALT run command in documentation
#328
georgiesamaha
closed
2 years ago
1
How can we identify LOH on some HLA allele in Lilac's output?
#327
Biojenifer
closed
1 year ago
1
DEV-2848 Add sampleIdMapping
#326
stefvanlieshout
closed
1 year ago
0
pave pon Artefact file for 37
#325
DavyCats
closed
2 years ago
2
GRIPSS on GRIDSS svtypes
#324
stsergbg
closed
2 years ago
3
GRIPSS 2.2 RepeatMasker parsing error
#323
scwatts
closed
2 years ago
4
Data Access Issue
#322
felixbeaudry
closed
2 years ago
2
Documentation question: purple segment tsv column name meanings
#321
jamesdalg
closed
2 years ago
1
HMF demo pipeline Sage error
#320
gbnci
closed
2 years ago
6
java error on local system - sage_v3.0_rc3
#319
MjelleLab
closed
2 years ago
1
Lilac gene copy number
#318
jaesvi
closed
2 years ago
1
germline vs somatic LiLac HLAtyping
#317
Biojenifer
closed
2 years ago
1
LiLaC error: Unrecognized option: -gene_copy_number_file
#316
Biojenifer
closed
2 years ago
1
Error with specific regions plotting in LINX visualization
#315
jamesdalg
closed
2 years ago
2
Cannot find somatic SNV/INDEL PON
#314
DarraghNimmo1
closed
2 years ago
1
Purple not generating some files
#313
Biojenifer
closed
2 years ago
2
File format TUMOR.purple.cnv.somatic.tsv
#312
hylkedonker
closed
2 years ago
1
Question about mappability bed and downstream filtering
#311
toddajohnson
closed
1 year ago
1
Bump numpy from 1.19.5 to 1.22.0 in /cuppa/src/main/resources/cuppa-chart
#310
dependabot[bot]
closed
8 months ago
1
PAVE and mappability_bed argument
#309
toddajohnson
closed
2 years ago
1
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