Results for "E-MEM"
Blogs
Software and Tools to detect structure variation with long reads !!
Uncovering the connection between genetics and heritable diseases requires an approach that looks at all the variant bases and types in a genome. While a PacBio d...2620 days ago
List of genome announcement, notes and reporting journals
Faced with an increasing number of articles describing DNA data and a need for more appropriate venues to present these data, some publishers and journals have respond...2021 days ago
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Bookmarks
Nucl2Vec: Local alignment of DNA sequences using Distributed Vector Representation
We demonstrate a novel approach forlocal alignment of DNA reads with respect to reference genome.For this process we have used Skip-gram model for creatingencoding(Nuc...1159 days ago
E-MEM: Efficient computation of Maximal Exact Matches
E-MEM is a C++/OpenMP program designed to efficiently compute MEMs between large genomes. See the README file for instructions on how to use E-MEM. E-MEM source code The source code...2710 days ago
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Pages
Check Linux server configuration !!
Bioinformatician uses servers for computational analysis. Sometime we need to check the server details before running our programs or tools. Here I am showing some bas...3665 days ago
Monitor running jobs on Linux server
You as a bioinformatican run lots of program on your servers. Sometime the shared server is also used by your colleague. If server is busy you sometime need to check t...3633 days ago
Top-level pages
- SLURM is a queue management system and stands for Simple Linux Utility for Resource Management. SLURM was developed at the Lawrence Livermore National Lab and currentl...
2927 days ago
- $ sudo apt-get install python-numpy python-scipy python-matplotlib ipython ipython-notebook python-pandas python-sympy python-nose[sudo] password for urbe: Reading pac...
2203 days ago
Bio-Scripts
Mapping with BWA-mem or BWA-sampe in one go with python script !
BAM files and mapping BESST requires sorted and indexed BAM files as input. Any read aligner + samtools can be used to obtain such files. Read pairs needs to be align...2137 days ago
Long reads mapper bash script !
#!/bin/bash #only for LONG READS mapping #USAGE: runMapper.sh minimap2 ref.fa reads.fa/fq 48 ont echo -e "This is a bash scrip to map your long reads and make it...2135 days ago
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Tags
E-MEM: Efficient computation of Maximal Exact Matches
E-MEM is a C++/OpenMP program designed to efficiently compute MEMs between large genomes. See the README file for instructions on how to use E-MEM. E-MEM source code The source code can be downloaded here. If you use E-MEM, please cite: N. Khiste, L. Ilie, E-MEM: Efficient comp...Tags: Bioinformatics, Analysis, Match, Genome, E-MEM
2710 days ago
Comments
Comment on "Nanopolis: polish a genome assembly"
# Index the draft 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.so...2112 days ago
