snakepipes: A toolkit based on snakemake and python for analysis of NGS data
snakePipes are flexible and powerful workflows built using snakemake that simplify the analysis of NGS data. DNA-mapping* ChIP-seq* RNA-seq* ATAC-s...1854 days ago
Seal: SEquence ALignment evaluation suite
Seal is a comprehensive sequencing simulation and alignment tool evaluation suite....epeat length, repeat variability rate). Simulating reads from random locations in the...te. Applying alignment tools to the genome and the reads t...2366 days ago
Jabba: Hybrid Error Correction for Long Sequencing Reads
Jabba is a hybrid error correction tool to correct third generation (PacBio / ONT) sequ...mat. These sequences will be corrected (e.g. PacBio reads). The corrections will be wri...a file in fasta format with corrections of the long reads,...2034 days ago
ECTOOLS: Long Read Correction and other Correction tools
Long Read Correction and other Correction tools This package is a loose collection of scrip...the bottom of this file. Contact: gurtowsk@cshl.edu In short...e correction algorithm takes as input the unitigs from a short r...2364 days ago
LRCstats: Long Read Correction Statistics
LRCstats is an open-source pipeline for benchmarking DNA long rea...d by Pacific Biosciences. The reads produced by third generation...ed by Illumina. However, long reads are plagued by high error rat...ng methods or using accurate, short reads outputted by next gener...rection algorithms using long reads p...2364 days ago
proovread : large-scale high-accuracy PacBio correction through iterative short read consensus
proovread : large-scale high-accuracy PacBio correction through iterative short read consensus outperforms PacBioToCA/LSC in terms of accuracy a...nitigs 454, ... proovread maps high coverage data to pacbio reads (...2364 days ago
AliTV—interactive visualization of whole genome comparisons
AliTV, which provides interactive visualization of whole genome alignments. AliTV reads multiple whole genome alignments or automatically generates alignments from the provided data. Optional fe...2359 days ago
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Carefully opt for human reference genome
Heng Li posted several issues with the human reference genomes given in these resources and suggests the following...essed FASTA file to be used as hg38/GRCh38 human reference genome. if you map reads t...1590 days ago
ARCS: scaffolding genome drafts with linked reads
ARCS, an application that utilizes the barcoding information contained in linked reads to further organize draft genomes into highly contiguous assemblies. We show how the contiguity of an ABySS...2304 days ago