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• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh commented on a bookmark R and Bioconductor Tutorial in the group R and Bioconductor 2784 days ago

  R graphics https://bioconductor.org/packages/devel/bioc/vignettes/chromPlot/inst/doc/chromPlot.pdf #chromPlot
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh posted to the wire 2784 days ago

  http://www.bioconductor.org/packages/release/bioc/vignettes/Gviz/inst/doc/Gviz.pdf #Plot #Chr
• • Jit@jit.aber

  

  Jit posted to the wire 2785 days ago

  Bash scripting cheatsheet https://devhints.io/bash #Bash #CheatSheet #Script
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh uploaded the file Biologist versus computational biologist ! 2786 days ago

  This is how it work :)
• • Abhimanyu Singh@abhimanyu

  

  Abhimanyu Singh posted to the wire 2786 days ago

  http://www.jaduniv.edu.in/upload_files/scroll_info/1537868817.pdf Bioinformatics #Jobs
• • Jit@jit.aber

  

  Jit bookmarked MITOS: improved de novo metazoan mitochondrial genome annotation 2788 days ago

  Allows automatic annotation of metazoan mitochondrial genomes. MITOS is a pipeline designed to compute a consistent de novo annotation of the mitogenomic sequences. The software allows for a systematic error screening, the standardisation of gene...

  http://mitos.bioinf.uni-leipzig.de/index.py
• • Jit@jit.aber

  

  Jit published a news post Ensembl 94 is out! 2788 days ago

  e94, we revolutionised the way we determine transcription factor binding sites, using a new data source from the SELEX project
• • Jit@jit.aber

  

  Jit answered the question UnicodeDecodeError: 'utf-8' codec can't decode byte 0x8b in position 1: invalid start byte 2789 days ago

  I guess, your bam file is zipped. Try renaming your *.vcf file to *.vcf.gz and run it. Hopefully this will fix the error ... 
• • Jit@jit.aber

  

  Jit created a new bio-script Bash color variables 2789 days ago
• • Neel@neelam

  

  Neel asked UnicodeDecodeError: 'utf-8' codec can't decode byte 0x8b in position 1: invalid start byte 2789 days ago

  whatshap phase -o seeWhat.vcf --reference genome.fa see.vcf genome.fa.sorted.bam This is WhatsHap 0.17 running under Python 3.6.6Traceback (most recent call last): File "/home/anaconda3/bin/whatshap", line 11, in <module>...
• • Neel@neelam

  

  Neel posted to the wire 2789 days ago

  Bioinformatics jobs at http://actrec.gov.in/data%20files/Vacancies/2018/ACTREC-Advt-74-2018.pdf #ACTREC #Job #Bioinformatics
• • Jit@jit.aber

  

  Jit bookmarked COSINE: non-seeding method for mapping long noisy sequences 2789 days ago

  Third generation sequencing (TGS) are highly promising technologies but the long and noisy reads from TGS are difficult to align using existing algorithms. Here, we present COSINE, a conceptually new method designed specifically for aligning long...

  https://github.com/SUwonglab/COSINE
• • Jit@jit.aber

  

  Jit bookmarked QUAST-LG: Versatile genome assembly evaluation 2789 days ago

  QUAST-LG-a tool that compares large genomic de novo assemblies against reference sequences and computes relevant quality metrics. Since genomes generally cannot be reconstructed completely due to complex repeat patterns and low coverage regions, we...

  http://cab.spbu.ru/software/quast-lg/
• • Jit@jit.aber

  

  Jit bookmarked Scribl : HTML5 canvas genomics graphic library 2789 days ago

  Scribl is a javascript, Canvas-based graphics library that easily generates biological visuals of genomic regions, alignments, and assembly data. Scribl can also be used in conventional offline pipelines, since everything needed to generate charts...

  http://chmille4.github.io/Scribl/
• • Jit@jit.aber

  

  Jit bookmarked vcfR: a package to manipulate and visualize VCF data in R 2789 days ago

  VcfR is an R package intended to allow easy manipulation and visualization of variant call format (VCF) data. Functions are provided to rapidly read from and write to VCF files. Once VCF data is read into R a parser function extracts matrices from...

  https://github.com/knausb/vcfR
• • Rahul Nayak@rahul

  

  Rahul Nayak posted to the wire 2789 days ago

  Variant calling workflow http://www.htslib.org/workflow/ #Variant #Calling #Tutorial
• • Jit@jit.aber

  

  Jit created a new bio-script Installing Platypus on Ubuntu ! 2789 days ago
• • Jit@jit.aber

  

  Jit created a new bio-script Install HTSLIB on Ubuntu ! 2789 days ago
• • Shruti Paniwala@shruti

  

  Shruti Paniwala bookmarked Platypus: A Haplotype-Based Variant Caller For Next Generation Sequence Data 2790 days ago

  Platypus is a tool designed for efficient and accurate variant-detection in high-throughput sequencing data. By using local realignment of reads and local assembly it achieves both high sensitivity and high specificity. Platypus can detect...

  http://www.well.ox.ac.uk/platypus
• • Shruti Paniwala@shruti

  

  Shruti Paniwala posted to the wire 2790 days ago

  Variant calling https://www.ebi.ac.uk/training/online/course/human-genetic-variation-i-introduction/variant-identification-and-analysis/what-variant #variant #snp #tutorial

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