marbl/verkko

Issues

• 5-untip -> get_original_coverage.py -> IndexError

  #229 opened 5 months ago by IsaacDiaz026
  3

• error in "ont_resolved_graph.gfa.err"

  #227 opened 6 months ago by socialhang
  4

• memory usage of MashMap in step8-hicpipeline

  #216 opened 8 months ago
  9

• Empty "assembly.haplotype[1/2].fasta" (plant genome)

  #208 opened 6 months ago by mushroomOK
  5

• more explicit crashes information

  #222 opened 6 months ago by Dmitry-Antipov
  2

• Better error reporting

  #228 opened 6 months ago by Dmitry-Antipov
  0

• Hi-C plus Trio on same run

  #193 opened 10 months ago by Dmitry-Antipov
  2

• Using only ONT

  #226 opened 6 months ago by heksaani
  1

• Issue with Rukki: thread 'main' panicked at 'index out of bounds: the len is 1 but the index is 1'

  #225 opened 6 months ago by XingzhengLee
  4

• Snakemake 8 compatibility

  #224 opened 6 months ago by tbenavi1
  1

• Strange GFA outputs in uncompressed gfa

  #199 opened 10 months ago by skoren
  0

• Add support for Pore-C to the hic pipeline

  #196 opened 10 months ago by skoren
  0

• Homogenize trio vs hic architecture

  #197 opened 10 months ago by skoren
  0

• Issue Encountered at sqStoreCreate Step

  #223 opened 6 months ago by XingzhengLee
  4

• assertionerror insert_aln_gaps verkko v1.4.1

  #217 opened 6 months ago by ptrebert
  3

• how to specified the default partion, the canu could work with "gridOptions=" -q big"" ,

  #219 opened 7 months ago by Jiangjiangzhang6
  4

• ONT-Only Assembly with Verkko?

  #221 opened 7 months ago by cahuparo
  1

• RED memory usage is high on simplex reads

  #220 opened 7 months ago by brianwalenz
  0

• Rephrase the compile section of README file

  #218 opened 7 months ago by jimmymcheung
  2

• ZeroDivisionError: float division by zero in estimate_unique_local.py

  #211 opened 7 months ago by Wwwwwwwyc
  4

• Core dumped in MBG

  #210 opened 7 months ago by wangsb111
  9

• Assertion issue

  #214 opened 8 months ago by Rookiezlololo
  3

• v1.4.1 ONT alignment failure

  #189 opened 9 months ago by ptrebert
  18

• Run Stalls at 99%

  #215 opened 8 months ago by nickgladman
  4

• v 1.4.1: KeyError in untip

  #212 opened 8 months ago
  2

• Test and integrate updated GraphAligner

  #200 opened 8 months ago by skoren
  1

• Explore alternate correction strategies

  #201 opened 8 months ago by skoren
  0

• Improved marking of unique nodes

  #198 opened 8 months ago by skoren
  0

• verkko does not always continue it's run correctly after crashes in hi-c

  #188 opened a year ago by Dmitry-Antipov
  1

• Slurm account and partition issue

  #209 opened 9 months ago by rmolbrich
  4

• Missing output files

  #207 opened 9 months ago by JWDebler
  1

• ONT-only assembly question

  #202 opened 9 months ago by marija-kra
  2

• ONT&HiFi's assembly with several Ns gap

  #203 opened 9 months ago by hq66
  1

• Error: combineConsensus.sh

  #206 opened 9 months ago by mushroomOK
  2

• --screen fails on relative paths

  #192 opened 9 months ago by brianwalenz
  0

• One of the commands exited with non-zero exit code; note that snakemake uses bash strict mode

  #205 opened 9 months ago by M-Asim-Javed
  2

• Gap closing in repetitive regions can cause problems

  #204 opened 9 months ago by Dmitry-Antipov
  0

• verkko trio mode failed

  #194 opened 9 months ago by LHG-GG
  4

• Not running final consensus since no rukki paths provided!

  #185 opened a year ago by xfcypeng
  4

• Query regarding assembly quality

  #195 opened 10 months ago by prasad693
  1

• Error in rule processONT

  #187 opened 10 months ago by caonetto
  23

• verkko for human mitochondria assembly

  #191 opened 10 months ago by Solyris83
  1

• Likely incorrect ONT-based resolution

  #190 opened 10 months ago by skoren
  0

• Error in 3-alignTips phase

  #186 opened a year ago by jlipovac
  5

• Is it possible to compile this project with aarch64 cpu support?

  #184 opened a year ago by 181802969
  2

• data recommendation

  #183 opened a year ago by LHG-GG
  4

• --paths doesn't work on hifi-only asm

  #182 opened a year ago by skoren
  2

• trivial documentation fix--will take you 30 seconds to fix (if you are really slow...)

  #179 opened a year ago by dgordon562
  2

• please clarify: duplicated sequences

  #180 opened a year ago by ptrebert
  2

• Can I use verkko to assemble polypolid haplotyped genome?

  #181 opened a year ago by kedduck
  2