Results for "structural and sequence variation"
Top-level pages
List of visualization tools for network biology
Network analysis is any structured technique used to mathe...Following are the list of standalone applications for network...level analysis of microarray, sequence, regulatory and other data http://www.biolog...p; Interactive visualization and exploration for any network and co...2288 days ago
List of visualization tools for genome alignments
...tocols, testing data quality, and generating result drafts. Its integr...d representation to display a sequence assembly and associated metadata http://w...w- or high-depth read pileups and easy visualization of putative single nucleotide and structural variation http://lookseq.sourceforge....2284 days ago
Awk for Bioinformatician and computational biologist
Awk is a programming language which allows easy manipulation of structured data and is mostly used for pattern scanning and processing. It searches one o...le,$ awk 'BEGIN{print "Header,Sequence"}{print $1","$2;}END{print "-...------"}' data/test.tsvHeader,Sequencecontig1,ACTGTCTGTCACTGTGTTGTGA...2280 days ago
Some useful Bioinformatics links
Reference-free prediction of rearrangement breakpoint reads |...the distance between multiple sequence alignments | Bioinformatics |...i-metagenome/docs/step9.html Bandage by rrwick https://rrwick.githu....gov/pmc/articles/PMC3921174/ sequence - download.tardigrades.org &g...2241 days ago
- ...0) print sum / n; }' To get sequence length for all sequences in a fasta file: awk '...astq files using gnu parallel and gzip: parallel gzip ::: *.fastq...: pigz *.fastq To count all sequences in a fasta file: grep "^>..."\n" > myf2.fq To filter and sort contig identifiers from SPAde...
2217 days ago
Tools to Predict the Impact of Missense Variants !
Prioritizing missense variants for further experimental investi...he datasets used for training and for evaluation of these tools...ease‐causing potential of DNA sequence alterations” MutationA...o acids within protein‐coding sequences, which are likely to be unco...2203 days ago
Protein-Protein Interaction Sites Predictions !
The study of Protein–Protein Interactions (PPIs) has a cr...artners of a specific protein and the amino acid residues parti...in turn facilitate the understanding of many biological and cli...of interaction hotspots from sequence KFC server Automated decisi... cons-PPISP, PINUP, and ...2202 days ago
Ancestral sequence reconstruction steps !
Ancestral sequence reconstruction (ASR) – also known as ancestral gene/sequence reconstruction/resurrect...f an ancestral gene and expression of the correspondi...suggested in 1963 by Pauling and Zuckerkandl.&n...the improvement of algorithms and of better sequencing and synthesis...2179 days ago
LINKS scaffolder bloomfilter setting !
➜ bin git:(master) ✗ ls -l total 68 drwxrwxr-x 3 urbe urbe 4096...KS Usage: ./LINKS [v1.8.6] -f sequences to scaffold (Multi-FAST...le-of-filenames, full path to long sequence reads or MPET pairs [see belo...= no, optional) Error: Missing mandatory options -f and -s....2151 days ago
Understanding BLASTn output format 6 !
BLASTn output format 6 BLASTn maps DNA against DNA, for example gene sequences against a reference gen... Aligned part of subject sequenceevalue Expect valuebitscore...coring matchesframes Query and subject frames separated by a '/'q...separated by a '<>'sstrand Sub...2138 days ago
