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hartwigmedical
/
hmftools
Various algorithms for analysing genomics data
GNU General Public License v3.0
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[ERROR] cannot find sequence index for chromosome 6 in bam header
#392
rod1Gene
closed
1 year ago
2
Purple MACN in SV VCF
#391
jaesvi
closed
1 year ago
2
Regarding templated insertions in LINX
#390
jaesvi
closed
1 year ago
2
Quick question-- compatibility with long read data?
#389
jamesdalg
closed
1 year ago
1
GRIPSS 2.3.5 in -germline mode overwrites somatic GRIPSS VCF
#388
toddajohnson
closed
1 year ago
1
move orange datamodel assembly plugin dependency to orange pom
#387
mvanniekerkHartwig
closed
1 year ago
0
What are considered valid sample names for PURPLE?
#386
toddajohnson
closed
1 year ago
2
ACTIN-41: Add optional disclaimer to ORANGE
#385
jbartletthmf
closed
1 year ago
2
Fix orange datamodel artifact
#384
mvanniekerkHartwig
closed
1 year ago
0
ACTIN-33: Show CNs with 1 place after decimal in ORANGE
#383
jbartletthmf
closed
1 year ago
0
ACTIN-32: Improve formatting for undetermined HRD type
#382
jbartletthmf
closed
1 year ago
0
ACTIN-24: Use one instance of ReportResources to avoid duplicating fonts
#381
jbartletthmf
closed
1 year ago
0
Cannot find citation
#380
micoli98
closed
1 year ago
2
cider - Inappropriate call if not paired read
#379
3d7l
closed
3 months ago
3
patient-db: Command execution failed.
#378
3d7l
closed
1 year ago
1
linx 1.22.1
#377
DavyCats
closed
1 year ago
1
cider - Invalid reference index - htsjdk.samtools.QueryInterval
#376
3d7l
closed
1 year ago
5
Extract datamodel
#375
mvanniekerkHartwig
closed
1 year ago
0
ecDNA links
#374
Bo-UT
closed
1 year ago
3
SAGE: repeated variants with different read context in output vcf
#373
rebber
closed
1 year ago
1
MSI Score
#372
Luke-Tork
closed
1 year ago
1
circos issue
#371
felixbeaudry
closed
1 year ago
1
jar for rose 1.3
#370
DavyCats
closed
1 year ago
2
ISOFOX: Fail to generate the expected GCrRatio counts file for GRCh38
#369
YingYa
closed
1 year ago
4
Cannot find SageGermlinePon.98x.38.vcf.gz
#368
FedericaBrando
closed
1 year ago
1
GRIPSS incorrect name matching
#367
micoli98
closed
1 year ago
1
PDF report output
#366
davidvanzessen
closed
1 year ago
1
Failed to run the gridss-purple-linx pipeline
#365
Eric0627
closed
1 year ago
1
java.nio.file.NoSuchFileException: /workspace/purple/circos/COLO829T.circos.conf
#364
bobrad98
closed
1 year ago
1
Errors when running COBALT and AMBER with v37 test data
#363
bobrad98
closed
1 year ago
4
PURPLE fails with java.lang.NullPointerException with some input files
#362
micoli98
closed
1 year ago
3
COBALT behaviour depends on reference genome used for alignment
#361
bobrad98
closed
1 year ago
8
TSO500 different reference
#360
davidvanzessen
closed
1 year ago
3
LINX output files: how to achieve breakpoint information for each gene of a fusion?
#359
FrancescaMiccolis
closed
1 year ago
1
Dev 2919: PEACH JAVA review
#358
DFKoetsier
closed
2 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
7 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
7 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
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