SibeliaZ

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(support oneTBB) fatal error: tbb/mutex.h: No such file or directory

3

I'm using Ubuntu 22.04 and cannot compile Sibeliaz: ``` In file included from /.../software/SibeliaZ/TwoPaCo/src/graphdump/graphdump.cpp:17: /.../software/SibeliaZ/TwoPaCo/src/graphdump/../common/streamfastaparser.h:8:10: fatal error: tbb/mutex.h: No such file or directory 8 | #include | ^~~~~~~~~~~~~ ``` The...

thekswenson

Q on coverage, multi-genome alignment, and maf2synteny

4

Hi, thanks for this fast and easy-to-run aligner :) I have two questions. 1. How the "coverage" in the report was calculated? I had a coverage value 0.95 from a...

ohdongha

Apply the tool to virus

4

Hello author, i am sorry to disturb you. I want to apply SibeliaZ to virus (for example HIV) to obtain collinear blocks. After that, I will extract SNVs from those...

Alice-yyt

is it suitable for the very big genome?

2

Hi, I have a big genome with 46,139,523,234 bases and 20131 contigs. Here is the summary of the longest contigs. ``` ptg000004l 169819904 ptg000441l 158822330 ptg000279l 109104046 ptg000035l 107045360 ptg000669l...

AlisaGU

support gzip'd input fasta

1

Running SibeliaZ v1.2.4 on gzip'ed input fasta files results in the following error: ``` Error: The FASTA header should start with a '>', started with '' Loading the graph... error:...

nick-youngblut

Validation in Bacteria

10

I feel like this type of method would work as a fantastic competitor to bacterial whole genome alignment software such as Mauv/progressiveMauve. Have you tried validating this software with bacterial...

noahaus

Conda installation doesn't include maf_to_gfa1.py

2

I recently installed SibeliaZ as a separate environment using conda and ran the program on two strains of a species. I got the maf and gff output files. However, when...

syngnathid

more detailed description for output

1

Hello, could you please share a more detailed description for output files?:)

Alice-yyt

command terminated by signal 9

1

I was trying to perform global alignment on 887 fasta files. But it's giving me this error- _Loading the graph... Analyzing the graph... [.Command terminated by signal 9 SibeliaZ-LCB: 3450.12...

ShoumikSaha

How can I create UCSC a bigMaf track from sibeliaz .maf?

2

Following steps from UCSC http://200.144.254.2:8001/goldenpath/help/bigMaf.html I cannot create bigMaf.txt mafToBigMaf genome1 examples/sibeliaz_out/alignment.maf stdout | sort -k1,1 -k2,2n > genome1bigMaf.txt reference databases (genome1) must be first component of every block on...

motutaj