CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
...imultaneously work with scaffold assemblies obtained from any in silico and in vitro techniques, supporting multiple existing formats via built-in converters crea...2315 days ago
DendroPy: a Python library for phylogenetic computing
...nd supports the reading and writing of phylogenetic data in a range of formats, such as NEXUS, NEWICK, NeXML...d” primer . API documentation . Descriptions of data formats supported for reading/writing...2199 days ago
CrossMap: a program for convenient conversion of genome coordinates
...semblies (such as Human hg18 (NCBI36) <> hg19 (GRCh37), Mouse mm9 (MGSCv37) <> mm10 (GRCm38)). It supports most commonly used file formats including SAM/BAM, Wiggle/Big...2161 days ago
AfterQC: Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
...astq file/pair. Currently it supports processing data from HiSeq 2000/2500/3000/4000, Nextseq 500/550, MiniSeq...and other Illumina 1.8 or newer formats The author has reimplement...2133 days ago
FinisherSC:a repeat-aware tool for upgrading de novo assembly using long reads
...herSC. python finisherSC.py -par 20 destinedFolder mummerPath Sometimes, if the names of raw reads and contigs consists of special characters/formats, FinisherSC/MUMmer may not pa...2081 days ago
pWhatsHap: a parallel, high-performance version of WhatsHap
...rmance version of WhatsHap. pWhatsHap is embedded in a toolkit developed in Python and supports genomics datasets in standard file formats. Building on WhatsHap,&n...1994 days ago
genoPlotR - plot gene and genome maps project!
...r representation of several segments of DNA Comparisons represented by areas between the segments (like Artemis, for example) Reads from common formats: Genbank, EMBL, blast, Mauve,...1966 days ago
Biotite: A general framework for computational biology
...to intensive usage of NumPy and Cython. This package focuses on working with sequence and structure data and supports various file formats and analysis and manipulation...1961 days ago
GenomeView: genome browser and annotation editor
...rowser and annotation editor that displays reference sequence, annotation, multiple alignments, short read alignments and graphs. Most major data formats are supported. Local and inte...1945 days ago
SeqKit - a cross-platform and ultrafast toolkit for FASTA/Q file manipulation
FASTA and FASTQ are basic and ubiquitous formats for storing nucleotide and protein sequences. Common manipulations of FASTA/Q file include converting, searching, filtering, deduplica...1927 days ago