Tools to detect synteny blocks regions among multiple genomes
...ation of blocks of order within two sets of chromosomes that are being compared with...The genomes may be represented by sequenced chromosomes (pseudomolecules), by draft s...a 'SyntenyView' page displays a diagram of chromosomes with blocks of conserved synt...2620 days ago
Dynamic chromosome breakpoints !!!
...vision and segregation of identical sets of chromosomes into daughter nuclei and nucl...vement gets start and pulled DNA apart, the chromosomes are free to undergo recombina...ers are caused by the loss or gain of whole chromosomes, which affect the copy number...3562 days ago
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Detect the sequence pattern and its location in fasta file with match and mismatches information.
This script is one of my old script to detect some centromeric pattern in chromosomes. User can also control the number of mismatches allowed through command line .. To run: perl centro.pl3877 days ago
Genome Assembly Tools and Software - PART2 !!
...r for Brassicaceae SpeciesKGBassembler (Brassicaceae genome assembler) is a C++ based tool for assembling contigs and/or scaffolds to full chromosomes based on the karyotype maps o...2695 days ago
Commercial and public next-gen-seq (NGS) software
...ion is specifically optimized for the analysis of large numbers (millions) of high-throughput next-generation sequencer reads, aligned to whole chromosomes of model organism or mammalia...3528 days ago
Software packages for next gen sequence analysis
...ion is specifically optimized for the analysis of large numbers (millions) of high-throughput next-generation sequencer reads, aligned to whole chromosomes of model organism or mammalia...3252 days ago
Chromatin: From nucleosomes to chromosomes, 30 April - 2 May 2014
EMBL-EBI announced the Wellcome Trust Scientific Conference Chromatin: From nucleosomes to chromosomes, which continues EMBL-EBI series of meetings focused on fundamental aspects of chr...3934 days ago
Breaking chromosomes to study cancer !!!
Chromosomes are present in every cell of our body and...rried in genes that are arranged along the chromosomes. There are usually 46 chromosomes in every cell. These chromoso...ranged in some way. This may happen if two chromosomes swap pieces (a reciprocal tra...3589 days ago
Postdoc Positions - Mammalian Transcriptome Evolution at SIB
...genomes from primates (e.g., the emergence of new genes and their functions) and other mammals (e.g., the origin and evolution of mammalian sex chromosomes). In the framework of a recen...3928 days ago
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How DNA is Packaged (Advanced)
...ch cell in our body. And a typical cell nucleus is so small that ten thousand could fit on the tip of a needle. It is important to realize that chromosomes are not always present, they...3886 days ago
Plot the density of genes in R
#column1 = chromosome name and column2 = start position of the gene # check if ggplot2 is installed, if so, load it, # if not, install and load it if("ggplot2" %in%...2294 days ago
Plot custom gene density with R
library(karyoploteR) pp2259 days ago
SEX-DETector: A Probabilistic Approach to Study Sex Chromosomes in Non-Model Organisms
SEX-DETector is a probabilistic method that relies on RNAseq data from a cross (parents and progeny of each sex) to infer autosomal and sex-linked genes (genes located on the non recombining part of sex chromosomes). How does SEX-DETector work? SEX-DETector does not require prior sequencing of ...Tags: SEX-DETector, Probabilistic, Approach, Study, Sex, Chromosomes, Non-Model, Organisms
2176 days ago
chromoMap-An R package for Interactive Visualization and Annotation of Chromosomes
Provides interactive, configurable and elegant graphics visualization of the chromosomes or chromosome regions of any living organism allowing users to map chromosome elements (like genes, SNPs etc.) on the chromosome plot. It introduces a special plot viz. the "chromosome heatmap" that, in addit...Tags: chromoMap, R, package, Interactive, Visualization, Annotation, Chromosomes
1860 days ago
Comment on "Biological databases !"
Chromosomes here https://hgdownload.cse.ucsc.edu/goldenpath/hg38/chromosomes/1553 days ago
Comment on "RACA: Reference-Assisted Chromosome Assembly"
Chromosomer – a reference-based genome arrangement tool, which rapidly builds chromosomes from genome contigs or scaffolds using their alignments to a reference genome of a closel...2781 days ago