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- Jit@jit.aber
Jit created a new bio-script Perl script to count occurrence of a character ! 2103 days ago
- Jit@jit.aber
Jit commented on the blog Ancestral sequence reconstruction (ASR) or ancestral gene/sequence reconstruction/resurrection... 2106 days ago

GASP: Gapped Ancestral Sequence Prediction for proteins https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-5-123
- Jit@jit.aber
Jit bookmarked IQ-TREE: Efficient software for phylogenomic inference 2106 days ago

A fast and effective stochastic algorithm to infer phylogenetic trees by maximum likelihood. IQ-TREE compares favorably to RAxML and PhyML in terms of likelihoods with similar computing time IQ-TREE found higher likelihoods between 62.2%...

http://www.iqtree.org/
- Jit@jit.aber
Jit bookmarked MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons 2106 days ago

MACSE aligns coding NT sequences with respect to their AA translation while allowing NT sequences to contain multiple frameshifts and/or stop codons. MACSE is hence the first automatic solution to align protein-coding gene datasets containing...

https://bioweb.supagro.inra.fr/macse/index.php?menu=releases
- Jit@jit.aber
Jit posted to the wire 2106 days ago

polySNP: an analysis tool for quantitative sequencing https://www.nybg.org/files/scientists/dlittle/polySNP.html #SNP #polySNP #analysis #peak #Area
- Abhimanyu Singh@abhimanyu
Abhimanyu Singh posted to the wire 2109 days ago

Mutalyzer website https://www.mutalyzer.nl/ #Mutation #Analysis
- BioJoker@biojoker
BioJoker posted a new ad in the Opportunity Assistant Professor job recruitment in University of Pune on temporary basis 2112 days ago
- Jit@jit.aber
Jit posted to the wire 2112 days ago

Extract fasta with pattern $ perl -n -e '$on=(/^>(A)/) if (/^>/); print $_ if ($on);' pilonCor_round1.fasta > A_set.fa #Pattern #Extract #Fasta
- Rahul Nayak@rahul
Rahul Nayak posted to the wire 2113 days ago

Fastq 2 fasta convert $ sed '/^@/!d;s//>/;N' sample1.fq > sample1.fa #fastq2fasta #fastqtwofasta
- Rahul Nayak@rahul
Rahul Nayak posted to the wire 2113 days ago

One liner to remove the description information from a fasta file and just keep the identifier $ perl -p -i -e 's/>(.+?) .+/>$1/g' sample1.fa #clean #header #fasta
- Rahul Nayak@rahul
Rahul Nayak commented on the bio-script Extract fasta sequence from a multifasta file with fasta header Ids 2113 days ago

perl -ne 'if(/^>(\S+)/){$c=grep{/^$1$/}qw(id1 id2)}print if $c' fasta.file If you have a large number of sequences that you want to extract, then you most likely have the sequence identifiers in a separate file. Assuming that you have one...
- Jit@jit.aber
Jit commented on the fun Bioinformatics Jokes !! 2113 days ago

Someone ask a bioinformatician how to open the "Jar"? He suggested to download and install Java first. ;)
- Rahul Agarwal@raag
Rahul Agarwal posted to the wire 2113 days ago

http://ms-utils.org/ #MassSpectrometry #tools #packages #databases
- Rahul Agarwal@raag
Rahul Agarwal posted to the wire 2113 days ago

https://docs.microsoft.com/en-us/machine-learning-server/deployr/deployr-about #Rscripts #into #analytics #web #services
- Rahul Agarwal@raag
Rahul Agarwal posted to the wire 2113 days ago

http://impala.molgen.mpg.de/ #metabolomics #proteomics #pathway #analysis
- Rahul Agarwal@raag
Rahul Agarwal posted to the wire 2113 days ago

https://lipea.biotec.tu-dresden.de/home #Lipid #pathway #Analysis
- Rahul Agarwal@raag
Rahul Agarwal posted to the wire 2113 days ago

https://irkernel.github.io/ #R #kernelfor #Jupyter #Notebook
- Rahul Agarwal@raag
Rahul Agarwal posted to the wire 2113 days ago

https://github.com/jbytecode/rcaller #R #JAVA
- Rahul Agarwal@raag
Rahul Agarwal posted to the wire 2113 days ago

https://archive.codeplex.com/?p=rclr #R #dotNET
- Rahul Agarwal@raag
Rahul Agarwal posted to the wire 2113 days ago

https://www.rplumber.io/ #R #Rcode2webAPI

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