Patrick Tran Van
Patrick Tran Van
Hi I am working on a triploid species which is highly heterozygous, see genomescope plot http://qb.cshl.edu/genomescope/genomescope2.0/analysis.php?code=nnC4CPmgLE3605rbyM7y My data is Hifi and I used `-x ccs `. I would like to...
Hi, What would be your recommended parameters to map corrected pacbio reads (after 1 step of canu for example) against a genome ? This will be used for inversion detection...
Hi, Thanks for your amazing package. I am trying to describe an inversion scénario between 2 genomes. Here is my code: ``` # a minimal seq track s0
Hi, My species is triploid and is highly hetrozygous. I used `hifiasm --primary --n-hap 3 -t 24 -o out.asm .*.fastq.gz` But the assembly size of my primary contings is way...
Hi, Thanks for your software. I ran SALSA but unfortunately I didn't have satisfying result. I applied the Arima mapping pipeline and got this statistics before SALSA: ``` perl $STATS...
Hi, I have 5 species to compare and would need a matrix of pairwise distance at the end. I have tried to follow your tutorial but I am not sure...
Hi, Thanks for the script it works well so far. During the process some of my scaffolds have been discarded (because too short for EBI). Do you have a reverse...
Hi, I used fastq-multx in PE mode, so it trims correctly the barcode from the F read but some of the mate read (the reverse) have also the barcode (at...
Hello, I've used MaSuRCA for an assembly composed of paired end and "real mate pair" (after nextclip process, cat A,B and C). Then I've estimated my insert size mate pairs...
Hi, I have a MP which contain 27 912 951 reads. After nexclip, categories A+B+C contain 8 458 324 reads And categories D+E = 3 569 827 reads It looks...