Ecosyste.ms: Issues

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GitHub / STAR-Fusion/STAR-Fusion issues and pull requests

#370 - Compatibility of STAR-Fusion with STAR

Issue - State: closed - Opened by katjur01 about 1 year ago - 1 comment

#369 - Error with FusionInspector validate

Issue - State: open - Opened by pirateyoho about 1 year ago - 6 comments

#368 - exit 0 for --help and --show_full_usage_info

Pull Request - State: closed - Opened by fizwit about 1 year ago

#367 - Is there a concept of VAF corresponding to dna-seq?

Issue - State: open - Opened by user-tq about 1 year ago - 1 comment

#366 - Request for simulated fusion transcripts sequences

Issue - State: closed - Opened by acloop62hz about 1 year ago - 6 comments

#365 - BCL2:IGH fusion not reported

Issue - State: open - Opened by asaki1986 about 1 year ago - 8 comments

#364 - conda install v1.12.0 has no result

Issue - State: open - Opened by qquuzhao over 1 year ago - 1 comment

#363 - Error in running --denovo_reconstruct

Issue - State: open - Opened by YimingLiu000 over 1 year ago - 5 comments

#362 - EGFR-SEPTIN14 fusion misidentified as EGFR--AL627309.1

Issue - State: closed - Opened by dshafranskaya over 1 year ago - 3 comments

#361 - Star-Fusion with Drosophila Genome

Issue - State: open - Opened by cellmem over 1 year ago - 6 comments

#360 - ultima genomics version of STAR-Fusion

Issue - State: open - Opened by williambrandler over 1 year ago - 4 comments

#359 - What is 'leftbreakdinuc' in star-fusion output?

Issue - State: closed - Opened by EvaPang2022 over 1 year ago - 2 comments

#358 - Does this software work with WES data?

Issue - State: closed - Opened by jingydz over 1 year ago - 2 comments

#357 - EXITING: different motifs for the same junction

Issue - State: open - Opened by Coaxecva over 1 year ago - 3 comments

#356 - FISH detected fusion not detected by STAR-Fusion

Issue - State: closed - Opened by asaki1986 over 1 year ago - 7 comments

#355 - Bioconda recipe bakes incorrect perl script path

Issue - State: open - Opened by ScottNortonPhD over 1 year ago - 4 comments

#353 - Error, file: Chimeric.out.junction doesn't have expected formatting.

Issue - State: open - Opened by rpauly over 1 year ago - 8 comments

#352 - Pipeline stuck in the perl steps

Issue - State: open - Opened by sxz-ivan over 1 year ago - 1 comment

#351 - How to calculate VAF through star-fusion`s result?

Issue - State: open - Opened by dfc-1931475 almost 2 years ago - 1 comment

#350 - Old version v1.5 filter got different output from 2 runs

Issue - State: open - Opened by Wan-Yifei almost 2 years ago - 8 comments

#348 - tmp files remain after run

Issue - State: closed - Opened by hbeale almost 2 years ago - 4 comments

#346 - Non-Fatal Error in log, should I worry?

Issue - State: closed - Opened by rLannes almost 2 years ago - 2 comments

#345 - Pass along the RG line when using params file.

Pull Request - State: closed - Opened by tmooney almost 2 years ago - 1 comment

#344 - Only Preliminary Outputs in output file.

Issue - State: open - Opened by jaxLeeRugby almost 2 years ago - 1 comment

#342 - Can we allow paralogs?

Issue - State: closed - Opened by EvaPang2022 almost 2 years ago - 2 comments

#341 - New breakpoints introduced by Fusioninspector.

Issue - State: closed - Opened by EvaPang2022 almost 2 years ago - 2 comments

#339 - Error in building the ctat_lib.

Issue - State: open - Opened by lizhan96 about 2 years ago - 2 comments

#338 - Confusion about the detect fusion genes on 10X scRNA-seq

Issue - State: open - Opened by chuiqin about 2 years ago - 1 comment

#337 - No output in star predictions file

Issue - State: open - Opened by manjumoorthy95 about 2 years ago - 1 comment

#335 - singularity error :FATAL: "STAR-Fusion": executable file not found in $PATH

Issue - State: open - Opened by ioz-cas-jhy about 2 years ago - 5 comments

#334 - STAR Fusion perl error (?)

Issue - State: open - Opened by ameliaregina about 2 years ago - 5 comments

#333 - how to get the 5' and 3 'junction read from star-fusion?

Issue - State: open - Opened by ioz-cas-jhy about 2 years ago - 2 comments

#332 - Which part of parental gene involved in a fusion?

Issue - State: open - Opened by ioz-cas-jhy about 2 years ago - 2 comments

#331 - Can star fusion detect fusion in normal tissues

Issue - State: open - Opened by ioz-cas-jhy about 2 years ago - 2 comments

#330 - Can update latest version of STAR-Fusion in bioconda?

Issue - State: closed - Opened by chenzemin about 2 years ago - 3 comments

#327 - WARNING, no entry stored in dbm for [ENSG00000231367.4]

Issue - State: open - Opened by ioz-cas-jhy about 2 years ago - 2 comments

#326 - parental gene can't find

Issue - State: open - Opened by ioz-cas-jhy about 2 years ago - 2 comments

#324 - Can I do many tasks at the same time

Issue - State: open - Opened by ioz-cas-jhy about 2 years ago - 1 comment

#323 - Fatal LIMIT error:

Issue - State: open - Opened by kenasada about 2 years ago - 1 comment

#320 - Running STAR Fusion on multiple FASTQ files

Issue - State: open - Opened by ajsa-nukovic about 2 years ago - 3 comments

#319 - FusionInspector error

Issue - State: open - Opened by EvaPang2022 about 2 years ago - 1 comment

#318 - STARFusion FusionInspector error

Issue - State: open - Opened by john-alexander about 2 years ago - 8 comments

#317 - STAR-Fusion error

Issue - State: open - Opened by lsy6949 about 2 years ago - 1 comment

#316 - STAR-Fusion doesn't seem to work for me on usegalaxy.org

Issue - State: open - Opened by lukefulcher over 2 years ago - 48 comments

#315 - STAR-Fusion Error

Issue - State: open - Opened by Ly-cf32 over 2 years ago - 1 comment

#314 - General question about gene fusion detection

Issue - State: open - Opened by sssantamaria over 2 years ago - 5 comments

#313 - add exon number annotations

Issue - State: open - Opened by brianjohnhaas over 2 years ago

#312 - Can't set output dir to a path containing spaces

Issue - State: open - Opened by s-andrews over 2 years ago - 4 comments

#311 - junction_breakpts_to_genes.txt file contents and use

Issue - State: closed - Opened by tarfy over 2 years ago - 4 comments

#308 - No such file or directory error

Issue - State: open - Opened by schmittel over 2 years ago - 6 comments

#307 - Error in dfamscan.pl when building CTAT library

Issue - State: open - Opened by ztamura over 2 years ago - 7 comments

#306 - Is the STAR aligner `/path/to/STAR-2.7.0f/bin`? Thank you.

Issue - State: open - Opened by cmccabe0728 over 2 years ago - 5 comments

#305 - install star fusion without adding to path

Issue - State: closed - Opened by cmccabe0728 over 2 years ago - 2 comments

#304 - How to get the sequence of junction reads and spanning reads?

Issue - State: closed - Opened by cx994 over 2 years ago - 4 comments

#303 - ERROR: Genome version: 2.7.1a is INCOMPATIBLE with running STAR version: 2.7.5c

Issue - State: closed - Opened by amasden over 2 years ago - 1 comment

#301 - WARNING, no entry stored in dbm for [ENSG00000210082.2]

Issue - State: open - Opened by cx994 over 2 years ago - 7 comments

#300 - STAR-Fusion : Error in genome lib build(Error, no seek pos for acc: )

Issue - State: open - Opened by ps120195 almost 3 years ago - 9 comments

#299 - Error in dfamscan.pl

Issue - State: open - Opened by hfl112 almost 3 years ago - 5 comments

#298 - Running STAR-Fusion with multiple FASTQ files

Issue - State: open - Opened by geejaytee almost 3 years ago - 1 comment

#297 - FusionFilter got different results

Issue - State: closed - Opened by Johnnywang92 almost 3 years ago - 2 comments

#296 - Cannot find the file "run_distributed_jobs_locally.py"

Issue - State: open - Opened by lijiang825 almost 3 years ago - 1 comment

#295 - Bug with prep_distributed_jobs.py

Issue - State: closed - Opened by lijiang825 almost 3 years ago - 2 comments

#294 - Determining Length of Fusion Transcript

Issue - State: open - Opened by YogiOnBioinformatics almost 3 years ago - 3 comments

#293 - inconsistent fusion results

Issue - State: open - Opened by sunnywheat almost 3 years ago - 4 comments

#292 - Building customized STAR-fusion index DB hangs at the step of "dfamscan.pl"

Issue - State: closed - Opened by hailiangmei about 3 years ago - 4 comments

#291 - Fusion with intron insertion

Issue - State: closed - Opened by cswph about 3 years ago - 5 comments

#290 - value too great for base

Issue - State: open - Opened by jianguozhouzunyimedicaluniversity about 3 years ago - 2 comments

#289 - problem with CTAT genome build

Issue - State: open - Opened by anoronh4 about 3 years ago - 5 comments

#288 - Help with 'missing' fusion

Issue - State: closed - Opened by MikeWLloyd about 3 years ago - 5 comments

#287 - Error, cannot locate genome_lib_dir: /data/ctat_genome_lib_build_dir

Issue - State: open - Opened by praveenraj2018 about 3 years ago - 6 comments

#285 - STAR-Fusion v1.10.1 does not contain Singularity image

Issue - State: closed - Opened by bounlu about 3 years ago - 1 comment

#284 - min_pct_MM_nonspecific argument not found error

Issue - State: open - Opened by dgomezpere about 3 years ago - 1 comment

#283 - command worked fine with test data but no fusions detected in one's own data

Issue - State: open - Opened by karenhqq about 3 years ago - 4 comments

#282 - Error: Could not extract gene name from Transcript_id: Fusion Inspector

Issue - State: open - Opened by think-o about 3 years ago - 13 comments

#281 - Transcript selection for coding effect examination

Issue - State: closed - Opened by stsergbg about 3 years ago - 4 comments

#280 - CTAT library error

Issue - State: closed - Opened by been9312 over 3 years ago

#279 - has the docker of star-fusion been updated

Issue - State: open - Opened by worker000000 over 3 years ago - 3 comments

#278 - error running STAR-Fusion

Issue - State: closed - Opened by kyawagwin over 3 years ago - 5 comments

#273 - Mouse CTAT files are missing for v1.10

Issue - State: open - Opened by bounlu over 3 years ago - 8 comments

#271 - Details on FFPM computation

Issue - State: open - Opened by MagdalenaFeldhahn over 3 years ago - 15 comments

#266 - Error: Argument "brkpt_donorA" isn't numeric in preincrement

Issue - State: open - Opened by ziy776 over 3 years ago - 2 comments

#257 - STAR-fusion error: died with Failed to fetch sequence in chrM:-352-2601

Issue - State: open - Opened by YingYa over 3 years ago - 6 comments

#228 - Feature request - allow outputing sorted bam files

Issue - State: open - Opened by IvantheDugtrio about 4 years ago - 9 comments

#223 - NPM1-ALK and pseudogenes

Issue - State: closed - Opened by jhl667 about 4 years ago - 13 comments