xxay/hifiasm
1
0
Fork 0
mirror of https://github.com/chhylp123/hifiasm.git synced 2026-09-15 12:47:57 +08:00
Code Issues Packages Projects Releases Wiki Activity

update README

Browse Source
This commit is contained in:
chhylp123
2020-04-12 20:59:49 -04:00
parent 3120db1340
commit 4216384df6
1 changed files with 2 additions and 3 deletions
Download Patch File Download Diff File Expand all files Collapse all files

5
README.md
View File

@@ -22,7 +22,7 @@ outputs consist of:
somatic mutations and recurrent sequencing errors.
2. Haplotype-resolved processed unitig graph without small bubbles
(*prefix*.p\_utg.gfa). Small bubbles might be caused by somatic mutations or noise in data,
which are not the real haplotype information
which are not the real haplotype information.
3. Primary assembly [contig][unitig] graph (*prefix*.p\_ctg.gfa). This graph collapses different
haplotypes.
4. Alternate assembly contig graph (*prefix*.a\_ctg.gfa). This graph consists of all assemblies that
@@ -40,8 +40,7 @@ For trio assembly, the input of hifiasm is the PacBio Hifi reads in fasta/fastq
In addition, hifiasm also outputs three binary files that save all overlap inforamtion
(*prefix*.ec.bin, *prefix*.ovlp.reverse.bin, *prefix*.ovlp.source.bin). With these files, hifiasm can avoid the time-consuming all-to-all overlap calculation step, and do the assembly
In addition, hifiasm also outputs three binary files that save all overlap information (*prefix*.ec.bin, *prefix*.ovlp.reverse.bin, *prefix*.ovlp.source.bin). With these files, hifiasm can avoid the time-consuming all-to-all overlap calculation step, and do the assembly
directly and quickly. This might be helpful when you want to get an optimized
assembly by multiple rounds of experiments with different parameters.