BOL: Results for "mappings"

Results for "mappings"

- Surabhi Chaudhary@surabhi
BBTools for bioinformatician !
...igned to find the best mapping, and heuristics will cause it to ignore mappings that are valid but substantia...rent version of it, BBMapSkimmer, which is designed to find all of the mappings above a certain threshold. Th...
2281 days ago
- Rahul Nayak@rahul
chromoMap-An R package for Interactive visualization and mapping of human chromosomes
...fic for that location. You can map thousands of genes and can view all mappings easily. Users can investigate the detailed information about the mappings (like gene names or total gen...
2151 days ago
+1 more Blogs

- Jit@jit.aber
NCBI Remap
...onceptually similar to liftOver in that in manages conversions between a pair of genome assemblies but it uses different methods to achieve these mappings. It is also available through...
3017 days ago
- Neelam Jha@neelam
mrFAST: Micro Read Fast Alignment Search Tool
...manual, describes how to choose the parameters and tune mrFAST with respect to the library settings. mrFAST is designed to find 'all' mappings for a given set of reads, how...
2942 days ago
+7 more Bookmarks

- Jit@jit.aber
NGS Glossary !!
...re common in next-generation sequencing, and are used to represent multiple types of quality metrics, including quality of base calls, quality of mappings, and probabilities associated...
2880 days ago
- Jit@jit.aber
Run miniasm assembler on nanopore reads !
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly g...
2341 days ago

- LEGE@lege
#Estimate the #insert #size with mapped reads $ head -10000 mappings.sam | awk '{ if ($9 > 0) { N+=1; S+=$9; S2+=$9*$9 }} END { M=S/N; print "n="N", mean="M", stdev="sqrt ((S2-M*M*N)/(N-1))}'
1634 days ago

- Jit@jit.aber
Installing docker for Bioinformatics on Ubuntu !
...r registry logs Fetch the logs of a container pause Pause all processes within one or more containers port List port mappings or a specific mapping for the...
1524 days ago
- Jit@jit.aber
Download minikraken database !
...2 --use-names --threads 4 --db minikraken2_v2_8GB_201904_UPDATE --fastq-input --report evol1 --gzip-compressed --paired ../mappings/evol1.sorted.unmapped.R1.fastq.gz ../mappings/evol1.sorted.unmapped.R2.fast...
1225 days ago

- Neelam Jha@neelam
Comment on "REAPR: a universal tool for genome assembly evaluation"
...;assembler>_perfect. This should take about a minute. The next tool we need is reapr smaltmap which creates a bam file of read-pair mappings. Do the same thing you did wi...
1348 days ago
- Jit@jit.aber
Comment on "MashMap: a fast and approximate software for mapping long reads (PacBio/ONT) or assembly to reference genome(s)"
...filter_mode <value> filter modes in mashmap: 'map', 'one-to-one' or 'none' [default: map] 'map' computes best mappings for each query sequence 'one-to-one' computes best mappings for query as well as referenc...
2133 days ago
+3 more Comments