AfterQC: Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data AfterQC can simply go through all fastq files in a folder and then output three folders: goo...2134 days ago
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
...e read and assembly K-mer coverage along with GC% for each sequence in the assembly.SEquence Coverage estimator Tool. filter: Filtering tools. Contains tools for filtering k-mer hashes and FastQ/A file...1978 days ago
nanofilt: Filtering and trimming of long read sequencing data
Filtering on quality and/or read length, and optional trimming after passing filters.Reads from stdin, writes to stdout. Intended to be used: directly after fastq extraction prior to mapping in a stream between extraction and mapping https://github.com/wdecoster/nanofilt2103 days ago
VariantBam: Filtering and profiling of next-generational sequencing data using region-specific rules
VariantBam is a tool to extract/count specific sets of sequencing reads from next-generational sequencing files. To save money, disk space and I/O, one may not want to s...2036 days ago
Referee: Genome assembly quality scores
...eference base at each position. Referee is a program to calculate a quality score for every position in a genome assembly. This allows for easy filtering of low quality sites for any...2005 days ago
RepeatMasker compatible blast tool
...ch-like complexity adjusted scoring. Cross_match is Phil Green's seeded smith-waterman search algorithm. Support for cross_match-like masklevel filtering. https://anaconda.org/bioc...1973 days ago
SeqKit - a cross-platform and ultrafast toolkit for FASTA/Q file manipulation
...e basic and ubiquitous formats for storing nucleotide and protein sequences. Common manipulations of FASTA/Q file include converting, searching, filtering, deduplication, splitting, sh...1929 days ago
1846 days ago
Shouji: a fast and efficient pre-alignment filter for sequence alignment
...s the need for computationally-costly dynamic programming algorithms. The first key idea of our proposed pre-alignment filter is to provide high filtering accuracy by correctly detecti...1641 days ago
Π-cyc: A Reference-free SNP Discovery Application using Parallel Graph Search
...of false positive cycles. Our solution is to search the graph in multicores shared memory parallel mode using graph decomposition then use filtering method to generate good quali...1556 days ago