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miniasm: very fast OLC-based de novo assembler for noisy long reads
By Jit 3237 days agogithub.com - Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format. Different from mainstream...
Run miniasm assembler on nanopore reads !
Last updated 3216 days ago by Jit Comments (5)Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format. Different from mainstream...-
Monitor running jobs on Linux server
Last updated 4507 days ago by Jitendra NarayanYou 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 the running programs and want to monitor the running programs as well. The "top"... Genomics and Personalized Medicine Breakthroughs
By Rahul Nayak 4511 days agohttp://bit.ly/e8QGzY Human genome mapping is now enabling a breakthrough in medical innovation -- personalized medicine. What does this mean for patients? We can now identify predispositions to disease, predict how we metabolize drugs, and figure...-
Frequent Paired-end reads (PE 2x100) mapping command lines
Last updated 3068 days ago by Jitbowtie2 -x hs37m -X 650 -q -1 r1.fq -2 r2.fq -S r12.bowtie2.sam bwa aln hs37m.fa r1.fq > r1.sai && bwa aln hs37m.fa r2.fq > r2.sai \ && bwa sampe hs37m r1.sai r2.sai r1.fq r2.fq > r12.bwa.sam bwa bwasw... Assistant Professor in Bioinformatics at Dr. D. Y. Patil Biotechnology & Bioinformatics...
Dr. D. Y. Patil Biotechnology & Bioinformatics Institute Tathawade, Pune 411033. Assistant Professor in Bioinformatics Essential : First Class Master’s Degree in the appropriate branch of Life Sciences / Technology (Tech.) OR Ph.D...pbalign: maps PacBio reads to reference sequences and saves alignments to a BAM file
By Jit 3059 days agogithub.com - pbalign aligns PacBio reads to reference sequences, filters aligned reads according to user-specific filtering criteria, and converts the output to either the SAM format or PacBio Compare HDF5 (e.g., .cmp.h5) format. The output Compare HDF5 file...Faculty post at Zhejiang University
Zhejiang University (ZJU) is seeking faculty candidates for its newly launched, highly competitive and well funded “Hundred Talents Program”. This search covers all colleges and departments at ZJU. Applicants, expected to be about 35 years old,...Cerulean: A hybrid assembly using high throughput short and long reads
By Rahul Nayak 3047 days agosourceforge.net - Cerulean extends contigs assembled using short read datasets like Illumina paired-end reads using long reads like PacBio RS long reads. Cerulean v0.1 has been implemented with bacterial genomes in mind. The method is fully described in...XAMPP: Starting Apache fail Ubuntu
By Ram Yash Pal 4506 days ago Comments (1)Just press Ctrl+Alt+T on your keyboard to open Terminal. When it opens, run the command(s) below:
