suhrig/arriba

Issues

• Blacklist - benign tissue samples (human and mouse)

  #255 opened a month ago by caranathunge
  4

• Questions regarding known fusions and batch processing

  #262 opened a month ago by Visayas892
  2

• total=ERROR: could not find sequence of contig '20' mouse genome (mm39)

  #261 opened a month ago by SimJohal
  1

• use umi cluster bam calling fusion by arriba

  #260 opened 2 months ago by litun-fkby
  3

• About --transcriptSelection option

  #259 opened 2 months ago by emiCbio
  3

• Addressing Ideogram Issues for HPV Visualization in draw_fusions.R

  #258 opened 2 months ago by km-2021
  1

• Function of STAR parameter outSAMtype BAM Unsorted in Arriba run? Which GTF is suitable? How to remove gene fusion from the benign samples?

  #257 opened 2 months ago by tanayb001
  2

• Reproducibility of detection

  #256 opened 2 months ago by sotaro-kanematsu
  2

• best practises config

  #254 opened 3 months ago by alexander-e-f-smith
  3

• download_references.sh hs37d5viral+GENCODE19 problem!

  #249 opened 3 months ago by ppxinyi
  3

• Coverage and supporting reads

  #253 opened 3 months ago by YinYangKarly
  4

• Analysing UMI processed reads through Arriba

  #252 opened 3 months ago by saty89
  4

• Arriba-blacklist

  #251 opened 3 months ago by caranathunge
  4

• using own fa file and gtf file error: gzip: stdin: not in gzip format

  #250 opened 4 months ago by ppxinyi
  8

• (total=ERROR: no normal reads found

  #248 opened 4 months ago by YasirKusay
  6

• Output fasta for TPM counting

  #242 opened 4 months ago by ericmalekos
  4

• Confidence determination

  #245 opened 4 months ago by YinYangKarly
  3

• Proper use of short_anchor

  #246 opened 4 months ago by cpsosa
  7

• Frequence of the split reads

  #247 opened 4 months ago by litun-fkby
  4

• Feature request: Compatibility with Starlong

  #218 opened a year ago by adbeggs
  12

• custom gtf file

  #241 opened 6 months ago by sotaro-kanematsu
  7

• Error while running draw_fusion.R

  #234 opened 6 months ago by rlaskar
  8

• how to visualize arriba results for a cohort?

  #244 opened 6 months ago by complexgenome
  1

• Multimapper filter vs malformed SAM records - how many alignments is "too many"?

  #243 opened 6 months ago by ascidwu
  11

• Arriba and STARfuison align

  #239 opened 7 months ago by xiucz
  7

• Fusion transcript mismatch between the same breakpoints

  #240 opened 7 months ago by gitgodgot
  2

• Criteria of selecting specific transcripts

  #236 opened 8 months ago by sotaro-kanematsu
  5

• The interpretation of the contents of the result file fusions.tsv.

  #238 opened 8 months ago by jiaanqiang
  2

• Finding fusions and counting supporting reads zsh: killed

  #229 opened a year ago by jdjdj0202
  17

• Identifying gene fusions in plant genomes.

  #237 opened 9 months ago by jiaanqiang
  3

• Issues with Missing Exon Coordinates Using "draw_fusions.R"

  #235 opened 9 months ago by Rustam86
  1

• Error occured while I running draw_fusion.R

  #233 opened 9 months ago by Zhengfy1022
  2

• Issue with Dragen BAM encountering std::out_of_range error in version [v2.4.0]

  #232 opened 10 months ago by avilaHugo
  8

• Single-End vs Paired-End behaviour for split1/2, discordant and coverage counts

  #230 opened 10 months ago by ahwanpandey
  14

• Reference Genome

  #220 opened 10 months ago by bshim181
  2

• Problem detection exom skipped

  #231 opened 10 months ago by zgtman
  2

• Using a genome not supported

  #221 opened 10 months ago by gabi-ryan
  3

• Arriba output filtering

  #219 opened 10 months ago by teresa1997
  5

• Known canonical fusion reported with zero reads - need help to understand the output

  #227 opened 10 months ago by renjukrishna13
  1

• Finding fusions and counting supporting reads zsh: killed

  #228 opened a year ago by jdjdj0202
  3

• Error in merging adjacent breakpoints?

  #226 opened a year ago by karlestira
  2

• zsh: exec format error: ./arriba

  #222 opened a year ago by jdjdj0202
  5

• Is it possible to have draw_fusions.R output the exon number in text?

  #223 opened a year ago by ahdee
  4

• Adding more tools to plot.

  #225 opened a year ago by Nitin123-4
  1

• Suppressed Sequences included in RefSeq_viral_genomes_v2.4.0.fa.gz

  #224 opened a year ago by selkamand
  1

• coverage < split_reads

  #217 opened a year ago by Benoitdw
  1

• Can I use the latest Gencode GTF file ?

  #216 opened a year ago by JeWeizhong
  1

• Issue with the "relative_support" filter

  #214 opened a year ago by bioPG
  1

• The CBFB::MYH11D fusion gene is discarded by the 'blacklist' filter, but it is not found in the blacklist file.

  #215 opened a year ago by bioPG
  3

• total=ERROR: could not find sequence of contig 'NC_007605'

  #213 opened a year ago by jdjdj0202
  2