CHSMiner: a GUI tool to identify chromosomal homologous segments
Background The identification of chromosomal homologous segments (CHS) within and between genomes is essential for comparative genomics. Various processes including insertion/deletion and inversion could cause the degeneration of CHSs. Results Here we present a Java software CHSMiner tha...Tags: CHSMiner, GUI, tool, identify, chromosomal, homologous, segments
2322 days ago
Taxoblast : Taxoblast is a pipeline to identify contamination in genomic sequence
Modern genome sequencing strategies are highly sensitive to contamination making the detection of foreign DNA sequences an important part of analysis pipelines. Here we use Taxoblast, a simple pipeline with a graphical user interface, for the post-assembly detection of contaminating sequences in ...Tags: Taxoblast, pipeline, identify, contamination, genomic, sequence
2318 days ago
alien_index : identify potential contaminants or horizontally transferred genes in transcriptomes.
identify potential contaminants or horizontally transferred genes in transcriptomes. algorithm is based on alogorithm described in the following: Gladyshev, Eugene A., Matthew Meselson, and Irina R. Arkhipova. "Massive horizontal gene transfer in bdelloid rotifers." science 320.5880 (2008): 1210...Tags: alien_index, identify, potential, contaminants, horizontally, transferred, genes, transcriptomes
1517 days ago
Tags: McClintock, Meta-pipeline, identify, transposable, element, insertions, next, generation, sequencing, data
1249 days ago
GEO2R: compare two or more groups of Samples
GEO2R to compare two or more groups of Samples in order to identify genes that are differentially expressed across experimental conditions.Tags: GEO2R, compare, groups, Samples, identify, genes, differentially, expressed, across, experimental, conditions
1195 days ago
doubletrouble: identify duplicated genes from whole-genome protein sequences and classify
doubletrouble aims to identify duplicated genes from whole-genome protein sequences and classify them based on their modes of duplication. The duplication modes are i. segmental duplication (SD); ii. tandem duplication (TD); iii. proximal duplication (PD); iv. transposed duplication (TRD) and; v....Tags: doubletrouble, identify, duplicated, genes, whole-genome, protein, sequences, classify
24 days ago