Results for "multiple fasta"
Top-level pages
$ sudo apt-get install python-numpy python-scipy python-matplotlib ipython ipython-note...dans.py -v -i test/*_?.fq.gz -f test/contigs.fa -o test/run1Options: Namespace(fasta='test/contigs.fa', fastq=['te...2202 days ago
Creating conda environment for python2.7
TIP: By default, environments are installed into the envs directory in your conda directory. Run conda...y=0.15.0 To create an environment with a specific version of Python and multi...2202 days ago
Ancestral sequence reconstruction steps !
Ancestral sequence reconstruction (ASR) – also known as ancestral...html" mafft --maxiterate 1000 --reorder --thread 24 --genafpair Dataset.fasta > Dataset_Alig.fasta 2- Your dataset has...2191 days ago
LINKS scaffolder bloomfilter setting !
...-f sequences to scaffold (Multi-FASTA format, required) -s file-of-f...or MPET pairs [see below] (Multi-FASTA/fastq format, required) -m MPE...on. default -d 4000, optional) Multiple distances are separated by...reads (default -t 2, optional) Multiple steps are separated by com...2163 days ago
My commonly used commands in Bioinformatics
FYI, I've found it useful to use MUMmer to extract the speci...evaluate them individually: minimap -t 24 assembly.fasta long_reads.fastq.gz | racon -t 24 long_reads.fastq.gz - assembly.fasta racon_assembly.fasta nucmer...2122 days ago
Parallel Processing with Perl !
...s a small tutorial on how to make best use of multiple processors for bioinformatics...uld not suggest using flock when dealing with multiple processes because it will dec...iles=`split -l $number_split “your_file.fasta” “file_name&rdquo...2092 days ago
Short-read assembly using Spades !
If we only had Illumina reads, we could also assemble these using the tool Spades. You...ts Move into the output directory and look at the contigs: infoseq contigs.fasta...837 days ago
Bioinformatics tools for genome assembly !
There are numerous genome assembly tools available, each with its strengths and weaknesses. Here is a list of some wi...and complex genomes. MaSuRCA: A hybrid assembler that combines data from multi...298 days ago
Steps to find all the repeats in the genome !
To find repeats in a genome from 2 to 9 length using a Perl script, yo...he genome sequence: Make sure you have the genome sequence in a FASTA file format. Let's assume the file is named "genome.fasta". ./RepeatMasker -pa <...260 days ago
Mitochondrial genome assembly tools !
Mitochondrial genome assembly tools are specialized software and algorithms designed to accurately reconstruct the mi...m that provides a pipeline for annotating mitochondrial genomes. It integrates multi...255 days ago
- « Previous
- 1
- 2
- 3
- 4
- Next »
