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50 Open 46 Closed
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Issues list

update nf-core modules already in pipeline enhancement New feature or request
#308 opened Mar 24, 2025 by tzvi909
@tzvi909
Liftover bedtools/gtf2bed from nf-core enhancement New feature or request
#307 opened Mar 24, 2025 by tzvi909
Liftover to CuteSV nf-core module enhancement New feature or request
#306 opened Mar 24, 2025 by mlgosh
@eascarrunz
Liftover to Sniffles nf-core module enhancement New feature or request
#305 opened Mar 24, 2025 by mlgosh
Liftover to Medaka nf-core module enhancement New feature or request
#304 opened Mar 24, 2025 by mlgosh
@Abibsb
Liftover to Deepvariant nf-core module enhancement New feature or request
#303 opened Mar 24, 2025 by mlgosh
Liftover to Graphmap2 nf-core module enhancement New feature or request
#302 opened Mar 24, 2025 by mlgosh
@Graeme-Smith
1
liftover multiqc to nf-core module enhancement New feature or request
#301 opened Mar 24, 2025 by slam2049
Liftover to MiniMap2 nf-core module enhancement New feature or request
#300 opened Mar 24, 2025 by mlgosh
@mlgosh
Add uBAM alignment enhancement New feature or request
#298 opened Mar 24, 2025 by cvriehl
JSON schema: nanoseq
#297 opened Mar 24, 2025 by slam2049
Sniffles version creating malformed VCF files bug Something isn't working
#294 opened Mar 11, 2025 by callumjethomas
1
i have run the nanoseq pipeline and it is giving me this error, although i have run jaffal seperatly and it worked fine. i dont know why this issue occurrs while running the nanoseq pipeline.
#293 opened Jan 28, 2025 by usama-khan1998
fq.gz not staged correctly when skipping demultiplexing bug Something isn't working
#291 opened Jan 22, 2025 by CormacKinsella
Add ToulligQC for raw read QC enhancement New feature or request
#285 opened Nov 18, 2024 by Salome-Brunon
java.lang.OutOfMemoryError: Java heap space with FastQC bug Something isn't working
#283 opened Oct 30, 2024 by jlandry69
Nanoseq Pipeline Fails at Bambu Process with java.lang.Boolean Error
#279 opened Oct 7, 2024 by xeniaroda
Different Chromosome counts between samtools and bambu bug Something isn't working
#278 opened Oct 1, 2024 by fbndr98
FILTER 'STRANDBIAS' is not defined in the header bug Something isn't working
#276 opened Sep 17, 2024 by mazzalab
Failed to run medaka consensus bug Something isn't working
#275 opened Sep 17, 2024 by mazzalab
Command in stage minimap2_transcriptome failed with exit status = 127 bug Something isn't working
#271 opened Aug 30, 2024 by rajithadp
ERROR ~ Error executing process > 'NFCORE_NANOSEQ:NANOSEQ:INPUT_CHECK:SAMPLESHEET_CHECK (sequences_inputNB.csv)' bug Something isn't working
#270 opened Jul 23, 2024 by Jordthomas93
SNIFFLES_SORT_VCF return an error due to mkdtemp bug Something isn't working
#269 opened May 28, 2024 by samuelecancellieri
Stringtie and featurecounts results: counts_gene.txt has more rows than counts_transcript.txt bug Something isn't working
#265 opened Apr 19, 2024 by CHENAO-QIAN
pipeline terminating early bug Something isn't working
#264 opened Mar 13, 2024 by nick-youngblut
2
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