Laura Uelze

I did not know that the computeGCBias function has been deprecated. Can you point me to an alternative?

Just to follow up (and on the off chance anyone is ever faced with a similar problem), our group has developed a little python script to calculate the GC bias,...

nope, unfortunately not.

I got the same: `fastqc /lustre/projects/dazzlerAssembly/asm_fHemTen_laura/hic/hic_reads/R1.fastq.gz /lustre/projects/dazzlerAssembly/asm_fHemTen_laura/hic/hic_reads/R2.fastq.gz -t 38 -o /lustre/projects/dazzlerAssembly/asm_fHemTen_laura/hic/qc/reads/fastqc` ``` OpenJDK 64-Bit Server VM warning: Insufficient space for shared memory file: 24679 Try using the -Djava.io.tmpdir= option to...

thanks @s-andrews . I deleted all files from `/tmp` and now it seems to have worked!

Wow, thank you @peter-yufan-zeng and @moxgreen! I just spent the whole morning on a very similar problem, but I didnt find your issue, because I am getting a different error....

I have the same question. Has there been any resolution?

I had a similar problem. I also noticed that command `hifiasm -o yMyxXan -t 38 /lustre/projects/dazzlerAssembly/test_hifi_snake/ccs/yMyxXan_ccs.fastq.gz 2> hifiasm.log` did not work. However, `hifiasm -o ymyxxan -t 38 /lustre/projects/dazzlerAssembly/test_hifi_snake/ccs/yMyxXan_ccs.fastq.gz 2> hifiasm.log`...

Same problem here. No idea how to solve it. Any suggestions?

Also appreciate if you can point me to any other tools suitable for assessing the quality of my hic interactions. I am using the arima 4 enyzme kit, if that...