ardy20

gfa output

1

Hi Can we get .gfa file output to view the graph?

Hi With the RagTag, I scaffolded a female plant assembly (as query) (HiFi assembled with IPA-contigs) using a male plant (Dovetail Omni-C scaffolded with HiFi-IPA). I used the default command/parameters:...

Can BWA-MEM be resumed from a checkpoint, when the tool failed due to short walltime?

Resume

1

Hi Can Nextdenovo be resumed, it it failed? What the parameters should be?

Resume

1

Hi Can smartdenovo be resumed if failed?

.gfa file produced

1

Hi Is there any way that we can get .gfa file of assembly?

WARNING: 7169 sequences contain more than 50% gaps/ambiguity

2

Sorry, I am new to IQ-Tree. I am running IQ-Tree in Conda using a simple default mode but I get the warning for 7169 of my sequences. However, the analysis...

Canu 2.1/tip crashes with more than 4096 input files

14

Hi I tried to install Canu 2.1.1 as instructed below: git clone https://github.com/marbl/canu.git cd canu/src make -j 2 But I get the error: Makefile:35: *** git '/usr/bin/git' version '1.8.3.1' too...

number of threads

1

Hi How many cpus it use? How can we increase number of threads or CPU when using clusters?

Hi I am interested to use your tool. In your example, Is the backbone.06.smallbubble.gfa the final graph of assembly? and does it include duplications and haplotigs that can be used...