Results for "multiple fasta"
Top-level pages
Run miniasm assembler on nanopore reads !
Miniasm is a very fast OLC-based de novo ass...the reads repeats: fq2fa ONT_A.fastq ONT_A.fasta minimap2 -xava-ont ONT_A.fasta ONT_A.fasta -t10 -X > AONT...Assemble with miniasm: miniasm -f ONT_A.fasta AONT.paf > AONT.gfa ...2342 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
BBSplit internally uses BBMap to map reads to multiple genomes at once, and determine which genome the...to each reference, or splitting the reads into multiple output files, one per referen...BBSplit is a tool that bins reads by mapping to multi...2326 days ago
- There are several ways you can convert fastq to fasta sequences. Some methods are l...tr -s "/t" "/n" > OUTFILE.fasta EMBOSS:seqret Standard sc...h the huge datasets fastq_to_fasta -h usage: fastq_to_fasta [-h...eq -a input.fastq > output.fasta Note that you can use eith...
2317 days ago
PerlOneLiner for Bioinformatician
FILE SPACING------------ # Double space a fileperl -pe '$\="\n"'perl -pe 'BEGIN { $\="\n" }'perl -pe '$_ .= "\n"'per...0; $m = 35; ($m,$n) = ($n,$m%$n) while $n; print $m' # Calculate least common multi...2314 days ago
List of visualization tools for network biology
Network analysis is any structured technique used to mathematically analyze a circuit (a “network” o...u.edu/main/?page_id=545 tYNA System for managing, comparing and mining multi...2300 days ago
List of visualization tools for genome alignments
Genome browsers are useful not only for showing final results but also for improving analysis protocols, testing...2-p176815501 LookSeq Web-based visualization of sequences derived from multi...2295 days ago
Some useful Bioinformatics links
Reference-free prediction of rearrangement breakpoint reads | Bioinformatics | Oxford Ac...w.ncbi.nlm.nih.gov/pubmed/24185095 MAFFT ver.7 - a multiple sequence alignment program h...hms/algorithms.html Measuring the distance between multi...2253 days ago
- ...length for all sequences in a fasta file: awk '/^>/ {if (seqlen)...To count all sequences in a fasta file: grep "^>" yourfile....ame.fasta To replace/squeeze multiple adjacent spaces by only on...ength($0); print }' scaffolds.fasta > 200bp_scaffolds.fasta &...
2229 days ago
Tools to Predict the Impact of Missense Variants !
Prioritizing missense variants for further experimental investigation is a key challenge in current sequencing studie...fects protein function” GERP++“Identifies constrained elements in multi...2215 days ago
Tools for Protein-Protein Docking !
Predicting the structure of protein–protein complexes using docking approaches is a difficult problem whose maj...pe complementarity and Lennard-Jones potentialminimization and re-scoring with multi...2214 days ago
