Comment on "Long read assembly workshop !"
Long reads base bacterial genome assembly https://inf-biox121.readthedocs.io/en/2016/Assembly/practicals/07_Assembly_using_minasm+racon.html2030 days ago
Comment on "nanofilt: Filtering and trimming of long read sequencing data"
Nanofilt steps https://gigabaseorgigabyte.wordpress.com/2017/06/05/trimming-and-filtering-oxford-nanopore-sequencing-reads/2030 days ago
Comment on "Long read assembly workshop !"
Long reads assembly PPT https://www.msi.umn.edu/sites/default/files/Badalamenti_PacBio_tutorial_12-10-2014.pdf2030 days ago
Comment on "Long read assembly workshop !"
Long reads assembler https://zenodo.org/record/345098/files/scientific_reports_assembly_long_reads%282%29.pdf2030 days ago
Comment on "HALC: High throughput algorithm for long read error correction"
Inputs Long reads in FASTA format. Contigs assembled from the corresponding short reads in FASTA format. The initial short reads in FASTA format (only for -or...en cat right_reads.fa >>short_reads.fa). Using AlignGraph...2082 days ago
2090 days ago
Comment on "Nanopolis: polish a genome assembly"
...aft genome bwa index draft.fa # Align the basecalled reads to the draft sequence bwa mem -x ont2d -t 8 draft.fa reads.fa | samtools sort -o reads.s...olish variants --consensus -o polished.{1}.vcf -w {1} -r reads.fa -b reads.sorted.bam -g dra...2090 days ago
Comment on "Installing Porechop on Ubuntu !"
...lONT.fasta -t 40 > ONT_choppedNcorrected.fa Loading reads/media/urbe/MyDDrive/ONTdata/allONT/allONT.fasta1,634,477 reads loaded Looking for known ada...1,634,477 / 1,634,477 (100.0%) 1,150,024 / 1,634,477 reads had adapters trimmed from the...2097 days ago
Comment on "LAMSA: fast split read alignment with long approximate matches"
...; <read.fa/fq> Algorithm options: -t --thread [INT] Number of threads. [1] -l --seed-len [INT] Leng...nce. [0.04] -x --mis-rate [FLOAT] Maximum error rate of mismatch within reads. [0.04] -T --read-type [STR]...2113 days ago
2128 days ago