Results for "multiple fasta"
Blogs
Basic command-line to run BLAST
The goal of this tutorial is to run you through a...rotein.faa These are protein sequences in FASTA format. FASTA format is something many of y...ndex files, must be in the same directory as the fasta file. blastp [-h] [-help] [...2260 days ago
- LiftOver is a necesary step to bring all genetical analysis to the same reference build....it in new: Sequence insufficiently intersects multiple chains Duplicated in new: Sequence sufficiently intersects multi...
2176 days ago
- ...no-deprecated -m64 -g -O2 -MT Fasta_entry.o -MD -MP -MF .deps/Fasta_entry.Tpo -c -o Fasta_entry.o...ted -m64 -g -O2 -o inchworm Fasta_entry.o IRKE_run.o sequenceUt...-c ./analysis/CreateIwormFastaBundle.cc -o obj/analysis/Crea...Installed Properly GraphFromFasta: has been Installed...
2149 days ago
Converting a VCF into a FASTA given some reference !
Samtools/BCFtools (Heng Li) provides a Perl script vcfutils.pl which does thi...InDels as well, e.g. this by David Eccles ./vcf2fq.pl -f <input.fasta> <all-site.vcf> >...2132 days ago
List of motif discovery tools !
In genetics, a sequence motif is a nucleotide or amino-acid sequence pattern that is wi...and Pfam) in a protein sequence. MultiBind -- Multiple Alignment of Protein Binding...ind homologous protein-protein interactions across multi...2009 days ago
CANU genome assembly parameters !
Choose the appropriate parameters to run Canu and run it. Th...The most interesting ones are: *.correctedReads.fasta.gz : file containing the...le containing the assembly graph by Canu *.contigs.fasta : file containing everyt...1961 days ago
Understanding reads mapping and flags !
Linear Alignment: An alignment of a read to a single reference sequence that may&nbs...e representative alignment. One read can align to multiple positions, we can find one al...dary Alignment: A read may map ambiguously to multi...1853 days ago
- AWK is a standard tool on every POSIX-compliant UNIX system. It’s like flex/lex, fr...he FS delimiter, # which defaults to white-space (multiple spaces,tabs count as one) #...ount of 0" : "Huh?"; # Blocks consisting of multi...
1851 days ago
New Machine Learning Packages in R
Machine Learning autokeras v1.0.1: Implements an interface to AutoKeras, an open source software library f...or an example. MTPS v0.1.9: Implements functions to predict simultaneous multi...1515 days ago
Protocol for De novo Genome Assembly using Illumina Reads
In this protocol, we address and describe the de novo assembly method for small to medi...ad to treatments for infectious diseases. Raw NGS dataReads can be saved as a Fasta file as text or in a FastQ fi...1220 days ago
