2054 days ago
vcfR: a package to manipulate and visualize VCF data in R
...ended 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...2033 days ago
AMStat: display statistics of large sequence files from next generation sequencing projects
...an efficient C program to quickly display statistics of large sequence files from next generation sequencing projects. When applied to SAM/BAM files all statistics are reported f...2018 days ago
BamView: a free interactive display of read alignments in BAM data files
...ine options are given when '-h' is used: java -jar BamView.jar -h BAM files can be specified on the comma...ve the same name as the BAM file but with a '.bai' suffix. Multiple BAM files can be loaded and overlaid in...2018 days ago
Deepbinner: a signal-level demultiplexer for Oxford Nanopore reads
...alyses, like Nanopolish. Deepbinner can demultiplex the fast5 fileswhich makes this easier....bsp;use Deepbinner: You only have basecalled reads not the raw fast5 files (which Deepbinner requires)....2000 days ago
1986 days ago
genoPlotR - plot gene and genome maps project!
...s the user to read from usual format such as protein table files and blast results, as well as home-made tabular files. Features Linear represen...: Genbank, EMBL, blast, Mauve, and from user-generated tab files Plot several subsegments of...1985 days ago
PilonGrid: parallel wrapper around the Pilon framework
The distribution is a parallel wrapper around the Pilon framework The pipeline is composed of bash scripts, an example mapping.fofn which shows how to input your fastq files (you give paths to the R1 file), and how to launch the pipeline.1984 days ago
ARCS: scaffolding genome drafts with linked reads
ARCS requires two input files: Draft assembly fasta file Interleaved linked reads file (Barcode sequence expected in the BX tag of the read header or in the form "@readname_barcode" ; Run Long Ranger basic on raw chromium reads to produce this interleaved file)1980 days ago
Biotite: A general framework for computational biology
...ce and structure modules serve for the analysis of sequence and structural data analysis respectively, database downloads files from the other databases such...1980 days ago