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IgBLAST: a popular NCBI package for classifying and analyzing immunoglobulin (IG) and T cell...
By BioJoker 2237 days agoIgBLAST is a popular NCBI package for classifying and analyzing immunoglobulin (IG) and T cell receptor (TCR) variable domain sequencesNCBIBLAST+ 2.14.1 now available
By Neel 922 days agoNCBIBLAST+ 2.14.1 now available with improved documentation, faster and more reliable database downloads, and some bug fixes.INC-Seq: accurate single molecule reads using nanopore sequencing
By Jit 3024 days agogithub.com - INC-Seq reads enabled accurate species-level classification, identification of species at 0.1 % abundance and robust quantification of relative abundances, providing a cheap and effective approach for pathogen detection and microbiome profiling...
Frequent Paired-end reads (PE 2x100) mapping command lines
Last updated 2855 days ago by Jitbowtie2 -x hs37m -X 650 -q -1 r1.fq -2 r2.fq -S r12.bowtie2.sam bwa aln hs37m.fa r1.fq > r1.sai && bwa aln hs37m.fa r2.fq > r2.sai \ && bwa sampe hs37m r1.sai r2.sai r1.fq r2.fq > r12.bwa.sam bwa bwasw...GenomeMapper: Simultaneous alignment of short reads against multiple genomes
By Jit 2845 days ago1001genomes.org - GenomeMapper is a short read mapping tool designed for accurate read alignments. It quickly aligns millions of reads either with ungapped or gapped alignments. It can be used to align against multiple genomes simulanteously or against a single...ReMILO: reference assisted misassembly detection algorithm using short and long reads.
By Jit 2803 days agogithub.com - ReMILO, a reference assisted misassembly detection algorithm that uses both short reads and PacBio SMRT long reads. ReMILO aligns the initial short reads to both the contigs and reference genome, and then constructs a novel data structure called...
