Jitendra Prajapati
A Bioinformatician
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CrossMap
By Abhimanyu Singh 3050 days agocrossmap.sourceforge.net - CrossMap is a program for convenient conversion of genome coordinates (or annotation files) between different assemblies (such as Human hg18 (NCBI36) <> hg19 (GRCh37), Mouse mm9 (MGSCv37) <> mm10...ONT assembly and Illumina polishing pipeline
By Jit 2606 days agogithub.com - This pipeline performs the following steps: Assembly of nanopore reads using Canu. Polish canu contigs using racon (optional). Map a paired-end Illumina dataset onto the contigs obtained in the previous steps...Research Associate Bioinformatics recruitment in ICGEB, New Delhi
Research Associate Bioinformatics recruitment in ICGEB, New Delhi Project :“Genetic Transformation and Development of Elite Transgenic Maize (Zea mays L.) for Biotic and Abiotic Stresses Tolerance”. Qualification: Ph.D. degree...dnaPipeTE: de-novo assembly & annotation Pipeline for Transposable Elements
By Rahul Nayak 2597 days agogithub.com - dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify Transposable Elements in small samples of NGS datasets. It is very useful to quantify the proportion of TEs...Senior Manager (Bioinformatics Operations) at RGCB, India
Senior Manager (Bioinformatics Operations) Rajiv Gandhi Centre for Biotechnology (RGCB) - Thiruvananthapuram, Kerala ₹15,600 - ₹39,100 a month Rajiv Gandhi Centre for Biotechnology (RGCB) invites applications for the following positions from...Ra assembler - a de novo DNA assembler for third generation sequencing data
By biogeek 2571 days agogithub.com - Integration of the Ra assembler - a de novo DNA assembler for third generation sequencing data developed on Faculty of Electrical Engineering and Computing (FER), Ruder Boskovic Institute (RBI) and Genome Institute of Singapore (GIS). Ra is in...TGNet
By Shruti Paniwala 3062 days agogithub.com - Recent technological progress has greatly facilitated de novo genome sequencing. However, de novo assemblies consist in many pieces of contiguous sequence (contigs) arranged in thousands of scaffolds instead of small numbers of...AlignGraph: algorithm for secondary de novo genome assembly guided by closely related references
By Manisha Mishra 2461 days agogithub.com - AlignGraph is a software that extends and joins contigs or scaffolds by reassembling them with help provided by a reference genome of a closely related organism. Using AlignGraph AlignGraph --read1 reads_1.fa --read2 reads_2.fa --contig contigs.fa...Gene Finding and Predictions
By Poonam Mahapatra 3060 days agogenome.crg.es - In this exercise, a previously annotated gene will be used to measure the accuracy of different gene finding approaches. GRAIL, GENSCAN, geneid, FGENESH, GenomeScan, GrailEXP and GENEWISE will be used to annotate the sequence. Both search by...EAGLER: a scaffolding tool for long reads.
By Jit 2413 days agogithub.com - EAGLER is a scaffolding tool for long reads. The scaffolder takes as input a draft genome created by any NGS assembler and a set of long reads. The long reads are used to extend the contigs present in the NGS draft and possibly join overlapping...
