wwood finishm issues - Githubissues

wwood / finishm

genome improvement and finishing without further sequencing effort

MIT License

5 stars 2 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Command finished with exitstatus 42

#43 lijierr opened 4 years ago
0
roundup 'velvetg' error

#42 epulo5 opened 7 years ago
3
check for duplicated output file and/or directory names

#41 wwood opened 7 years ago
0
'roundup' command with paired-end reads

#40 minsookim1983 closed 8 years ago
3
I got an error on 'roundup' command

#39 minsookim1983 closed 8 years ago
7
Can't test finishm

#38 cwzkevin closed 8 years ago
7
Having problem running finishm 0.0.7

#37 fauziharoon opened 8 years ago
2
printing contigs can fail when the middle stretch of nodes is too short

#36 wwood closed 9 years ago
4
piece_together_gapfill fails under finishm roundup

#35 donovan-h-parks closed 9 years ago
0
Probes written to temporary file with static name

#34 donovan-h-parks closed 9 years ago
3
remove dashes from output fasta file

#33 StevenJRobbins closed 9 years ago
1
feature to report orf protein sequence

#32 timbalam closed 9 years ago
2
Find orfs

#31 wwood closed 9 years ago
0
fix easy to fix big bug

#30 wwood closed 9 years ago
0
Missing sequences in output file

#29 donovan-h-parks opened 9 years ago
0
when there is no arcs, no nodes are visualised?

#28 wwood opened 9 years ago
0
Scaffolding can contain excessive numbers of ambiguous bases

#27 donovan-h-parks closed 9 years ago
3
Cyclic bubbler

#26 timbalam closed 9 years ago
3
Crash on finishm gapfill when applied to entire sample

#25 donovan-h-parks closed 9 years ago
4
assemble should have a --min-coverage-at-fork alongside --max-coverage-at-fork

#24 wwood opened 9 years ago
0
gap filling statistics

#23 ctSkennerton closed 9 years ago
1
undefined method error

#22 ctSkennerton closed 9 years ago
1
visualise should report when max-nodes or leash-length is reached

#21 wwood opened 9 years ago
0
connection file doesn't indicate reverse complement

#20 donovan-h-parks opened 9 years ago
0
empty connections file

#19 donovan-h-parks opened 9 years ago
0
number of filled gaps not reported

#18 donovan-h-parks opened 9 years ago
0
roundup infinite loop?

#17 wwood closed 9 years ago
9
Error running gapfill

#16 ctSkennerton opened 9 years ago
1
error when finishm script is a symlink

#15 ctSkennerton opened 9 years ago
0
No rule to make target finishm

#14 ctSkennerton closed 9 years ago
3
Find cyclic paths using SingleCoherentPathsBetweenNodesFinder

#13 timbalam closed 9 years ago
1
when using --logger, the timestamp is not shown

#12 wwood opened 9 years ago
0
velvet counts N characters as A characters

#11 wwood opened 9 years ago
0
gap filling should take into account the size of the given gap

#10 wwood opened 9 years ago
0
roundup mode should report the number of contig ends that did not connect to anything else

#9 wwood opened 9 years ago
1
finishm visualise can only handle one kind of probe definition at a time

#8 wwood opened 9 years ago
0
should use velvet bundled by default

#7 wwood closed 9 years ago
0
finishm assemble problem

#6 wwood closed 9 years ago
1
should output fastg format

#5 wwood opened 9 years ago
0
use multiple velvet threads

#4 wwood opened 9 years ago
1
deal with Ns when they fall within the probe sequence

#3 wwood opened 10 years ago
0
in -h, don't use PATH, instead use DIRECTORY or FILE

#2 wwood opened 10 years ago
0
missing contigs flag in visualize subcommand

#1 donovan-h-parks closed 9 years ago
1