Results for "Bowtie"
Blogs
Illumina based assembly pipeline steps !
...uenced FastQ files (cat) Read QC (FastQC) Adapter trimming (fastp) Removal of host reads (Kraken 2; optional) Variant calling Read alignment (Bowtie 2) Sort and index alignments...873 days ago
Common steps for reads mapping !
...ere are some general steps to follow for mapping reads to a genome: Choose a read mapper: There are many read mappers available, such as BWA, Bowtie, and HISAT2. Choose a mapper...420 days ago
Bookmarks
- SAMtools: Primer / Tutorial by Ethan Cerami, Ph.D.keywords: samtools, next-gen, next-generation, sequencing, bowtie, sam, bam, primer, tutorial, how-to, introductionRevisions &nb...
2869 days ago
- ...you understand how to run Velvet in general, how to accurately estimate the insert size of a paired-end library through the use of Bowtie, the primary parameters of ve...
2701 days ago
- +5 more Bookmarks
Top-level pages
Commercial and public next-gen-seq (NGS) software
...454, ilumina), parse caf, ace and bowtie map files, clean and filter c...Nelson and Barry Merriman at UCLA.Bowtie - Ultrafast, memory-efficient...rmatics)Short read aligner called Bowtie (http://bowtie-bio.sourceforg...anscriptomes by RNA-Seq. Supports Bowtie, BLAT and ELAND. From the Wol...3515 days ago
Software packages for next gen sequence analysis
...Written by Nils Homer, Stanley F. Nelson and Barry Merriman at UCLA. * Bowtie - Ultrafast, memory-efficient...- Mapping and Quantifying Mammalian Transcriptomes by RNA-Seq. Supports Bowtie, BLAT and ELAND. From the Wol...3239 days ago
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Wire posts
News
Linux operating system aimed at scientists
...e announcement. The changelog also states that a problem that was preventing the desktop to not start on VirtualBox has been fixed, the QIIME and Bowtie-Bio tools have been upgraded,...3390 days ago
Opportunity posts
- ...licant should have knowledge of the following: Programming: Perl and Python. Operating system: Linux and Windows. NGS Analysis tools: Maq, BWA, Bowtie, SAM tools, BEDTools, MACS, G...
3162 days ago
Bio-Scripts
- .../inchworm.K25.L25.DS.fa.min100 * Running CMD: /home/urbe/anaconda3/bin/bowtie2-build --threads 40 -o 3 /hom...null * Running CMD: bash -c " set -o pipefail;/home/urbe/anaconda3/bin/bowtie2 --local -k 2 --no-unal --thr...
2123 days ago
- (base) jit@jit-HP-Pro-3335-MT:~/Downloads/testDock$ docker build -t autocontampr . Sending build context to Docker daemon 9.024MB Step 1/16 : FROM ubuntu:14.04 ---...
1438 days ago
Tags
Latest paper on comparison of mapping tools
A. Hatem, D. Bozdag, A. E. Toland, U. V. Catalyurek "Benchmarking short sequence mapping tools" BMC Bioinformatics, 14(1):184, 2013. http://bmi.osu.edu/hpc/software/benchmark/ http://bmi.osu.edu/hpc/software/pmap/pmap.html Other similiar papers: http://online.liebertpub.com/doi/pdf/10.1089/cm...Tags: Sequencing, short reads mapping, SNP, GSNAP, BWA, Bowtie, BWA, mrsFAST
3893 days ago
Comments
Comment on "Setting up autoConTAMPR !"
...(0.0.20121010-1) ...Setting up t-coffee (10.00.r1613-1) ...Setting up tigr-glimmer (3.02-3) ...Setting up tm-align (20130511+dfsg-1) ...Setting up bowtie (1.0.0-5) ...Setting up hmmer...1438 days ago
Comment on "Commercial and public next-gen-seq (NGS) software"
...tp://maq.sourceforge.net/maq-man.shtmlSOAP alignment tool: http://soap.genomics.org.cn/SeqMaq: http://biogibbs.stanford.edu/~jiangh/SeqMap/Bowtie: http://bowtie-bio.sourceforge.net/Novoalign...3618 days ago
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