-
Dear Aouthr!
For now, allhic is the closest software for success to polyploidy in which I used.But I have a bewilderment.
When I use `Allele.ctg.table` pruning some hi-c signal, anchoring rate is ve…
-
Hi, @chhylp123
We are currently attempting to assemble a hexaploid using hifiasm with the following command:
```
hifiasm -t 100 -l3 --n-hap 6 --dual-scaf --ul ${ont} --h1 ${hic1} --h2 ${hic2} ${…
-
Hi dear senior,
Thank to your excellent scripts I was able to obtain 9 groups of contigs, however, I found that group2 has a ultra big length while group9 is so short. I would appreciate a lot if yo…
-
Hello, i am working on a plant species which is highly heterozygous and contains 3 trisomic chromosomes. We have both HiFi and HiC data. Is it possible to generate phased assembly using all hic pipel…
-
hi, there.
I am assembled a diploid plant genome by two cells of Hifi reads with default HiC mode in HIFIasm(0.15.4-r343). The genome size is expected to be 350M and the heterozygosity is 1.3%.
…
-
blastn -query dip_cds.fa -db brapa.cds -out dr.blast.out -evalue 0.001 -outfmt 6 -num_threads 4 -num_alignments 5
perl [blastn_parse.pl](http://blastn_parse.pl/) -i dr.blast.out -o Edr.blast.out -q…
-
Hi
At plotting stage, it is not clear how the chrn.list can be prepared, especially the length of each group. Could you please explain a bit more?
-
Hi,
Thank you so much to develop such amazing technology!
I have several questions when I explore the files.
The first one is, when I look into the file "alignment.parquet", I don't understand…
-
Hi @tangerzhang
After parition, there is only one group. This is my code
```
parallel -N2 -k -j 4 "bwa-mem2.avx512bw mem -R '@RG\tID:{1}\tPL:illumina\tSM:{1}' -t 8 ${r} {1} {2} | samtools view -b …
-
Hello,
I am working on plant species which is highly heterozygous and shows chromosomal aneuploidy. We have both 25× HiFi data and 50× HiC. Is it possible to generate a complete phased assembly u…