R. Eric Collins

Similar to the BLAST coloring, I would like to color sections of nodes. I don't see it in the docs, but maybe it's possible but undocumented?

max BLAST hits too low

3

When trying to use a complete bacterial genome as the BLAST query against an assembled genome, Bandage only finds a maximum of 400 hits per query sequence. I don't know...

non unique labels can cause issues

1

Not sure whether this is a 'bug' but it has caused me issues. A FASTG file with multiple nodes with the same id causes Bandage to silently pick its favorites...

feature request: add Scopes for 'length' and 'connectivity'

2

It would be useful to be able to filter by contig length, or by connections e.g. to avoid plotting singletons, or combined, to avoid plotting short singletons.

no output when using process substitution as input

1

I tried the following, which seems to process reads ok but doesn't output anything ```filtlong -1 R1.fastq.gz --min_length 1000 --target_bases 100000

Exit code -11

2

Hello, I'm running into an error with a few of my samples. I ran gdb -arg on all of them and got the same fault. (I changed to threads=1 to...

spades correction results in ill-formatted reads

5

Hello, I'm trying to assemble some metagenomes downloaded from EBI, and running into issues with SPAdes outputting fastq reads where the quality line is not the same length as the...

lighter installed from homebrew fails to complete

3

I installed lighter 1.1.1 on MacOS 10.12.4 via homebrew and it repeatedly stalled after the 'storing trusted kmers' until I killed it after 10 minutes of 0% CPU usage. It...

VIRSorter_global_phage_signal.csv is not machine readable

2

Hi, thanks for your program, it's very useful but a small change that would make it more so would be to make the output file easily machine readable (e.g. directly...