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- Neel@neelam
Neel bookmarked Smudgeplot: Inference of ploidy and heterozygosity structure using whole genome sequencing data 1000 days ago

This tool extracts heterozygous kmer pairs from kmer count databases and performs gymnastics with them. We are able to disentangle genome structure by comparing the sum of kmer pair coverages (CovA + CovB) to their relative coverage (CovB / (CovA +...

https://github.com/KamilSJaron/smudgeplot
- Neel@neelam
Neel bookmarked KAST 1002 days ago

Perform Alignment-free k-tuple frequency comparisons from sequences. This can be in the form of two input files (e.g. a reference and a query) or a single file for pairwise comparisons to be made.

https://github.com/martinjvickers/KAST
- Neel@neelam
Neel bookmarked GToTree: a user-friendly workflow for phylogenomics 1002 days ago

GToTree is a user-friendly workflow for phylogenomics intended to give more researchers the capability to create phylogenomic trees. The open-access Bioinformatics Journal publication is available here, and documentation and examples can...

https://github.com/AstrobioMike/GToTree
- Neel@neelam
Neel bookmarked AnchorWave 1002 days ago

AnchorWave (Anchored Wavefront Alignment) identifies collinear regions via conserved anchors (full-length CDS and full-length exon have been implemented currently) and breaks collinear regions into shorter fragments, i.e., anchor and inter-anchor...

https://github.com/baoxingsong/AnchorWave
- Neel@neelam
Neel created a new bio-script Bash script to transfer files to server ! 1004 days ago
- Neel@neelam
Neel created a new bio-script Count number of lines in each file in Linux ! 1007 days ago
- Neel@neelam
Neel bookmarked Comparative genomics visualisation tools ! 1008 days ago

Comparative genomics visualisation tools !

https://cmdcolin.github.io/awesome-genome-visualization/?latest=true&selected=%23BRIG&tag=Comparative
- Neel@neelam
Neel commented on the file Spades tutorial PDF 1009 days ago

Spades tutorial http://cab.spbu.ru/files/release3.11.1/manual.html#yaml
- Neel@neelam
Neel posted a new ad in the Opportunity Fulbright-Kalam Postdoctoral Research Scholarships for Indians 1010 days ago
- Jit@jit.aber
Jit created a new bio-script Install GATK 4 using conda ! 1012 days ago
- Jit@jit.aber
Jit answered the question What are the difference between terms mutation, variant, and strain ? 1012 days ago

Mutation refers to the actual change in sequence: D614G is an aspartic acid-to-glycine substitution at position 614 of the spike glycoprotein. Genomes that differ in sequence are often called variants. This term is somewhat less precise...
- Neel@neelam
Neel asked What are the difference between terms mutation, variant, and strain ? 1012 days ago
- Jit@jit.aber
Jit created a new bio-script Command line to print disk usage on Linux terminal ! 1015 days ago
- Jit@jit.aber
Jit created a new bio-script Commands to get the detail of disk usage on Linux ! 1016 days ago
- Jit@jit.aber
Jit posted to the wire 1016 days ago

Updated #prokaryotic representative #genomes collection includes 685 new species! https://ncbiinsights.ncbi.nlm.nih.gov/2022/02/07/updated_prok-rep-assemblies-2/
- Jit@jit.aber
Jit created a new bio-script BBmap the reads with all alignments ! 1018 days ago
- Jit@jit.aber
Jit bookmarked chromeister: An ultra fast, heuristic approach to detect conserved signals in extremely large... 1022 days ago

chromeister: An ultra fast, heuristic approach to detect conserved signals in extremely large pairwise genome comparisons. USAGE: -query: sequence A in fasta format -db: sequence B in fasta format -out: output matrix -kmer Integer: k>1...

https://github.com/estebanpw/chromeister
- Neel@neelam
Neel posted a new ad in the Opportunity "IdeasLab"* workshop ! 1023 days ago
- Neel@neelam
Neel posted a new ad in the Opportunity Summer school open to PhD students 1023 days ago
- Neel@neelam
Neel bookmarked GenomeTools: The versatile open source genome analysis software 1023 days ago

The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary named gt. It is based on a C library named...

http://genometools.org/

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