kWIP: The k-mer weighted inner product, a de novo estimator of genetic similarity
The k-mer Weighted Inner Product. This software implements a de novo, alignment free measure of sample genetic dissimilarity which operates upon raw sequencing reads. I...2187 days ago
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
...een two (or three) sequence files or hashes. sect: SEquence Coverage estimator Tool. Estimates the coverage...ge along with GC% for each sequence in the assembly.SEquence Coverage estimator Tool. filter: Filtering tool...2001 days ago
Genome Assembly Tools and Software - PART2 !!
...that provide non-paired data, or contigs that were output from a prior run of PRICE or any other ALE 20130717 – Assembly Likelihood EstimatorALE is a probabalistic fr...2705 days ago
Genome Assembly Tools and Software - PART1 !!
...state-of-the-art assemblers and the hybrid assemblies merged by existing tools Cufflinks 2.2.1 – Transcript Assembler & Abundance Estimator for RNA-Seq Cufflinks asse...2705 days ago
Run Pango on your multifasta file !
...el 11/30/2021, 13:10:05 /home/jnarayan/anaconda3/envs/pangolin/lib/python3.8/site-packages/sklearn/base.py:324: UserWarning: Trying to unpickle estimator DecisionTreeClassifier from v...906 days ago
kWIP: The k-mer weighted inner product, a de novo estimator of genetic similarity
The k-mer Weighted Inner Product. This software implements a de novo, alignment free measure of sample genetic dissimilarity which operates upon raw sequencing reads. It is able to calculate the genetic dissimilarity between samples without any reference genome, and without assembling one. ...Tags: kWIP, k-mer, weighted, inner, product, de novo, estimator, genetic, similarity
2187 days ago
ALE: Assembly Likelihood Estimator
Just import the assembly, bam and ALE scores. You can convert the .ale file to a set of .wig files with ale2wiggle.py and IGV can read those directly. Depending on your genome size you may want to convert the .wig files to the BigWig format.Tags: ALE, Genome, Assembly, Likelihood, Estimator
443 days ago