Results for "Graph Theory"
Bio-Scripts
# Count k-mer occurrence using Jellyfish 2.2.6 jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? sread_1.fastq sread_2.fastq # points for a histogram jellyfish histo -o 19mer_out.histo 19mer_out #Plot results using R ##load the data into dataframe19 dataframe192258 days ago
Estimate Genome Size with Jellyfish and R
jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? /common/Tutorial/Genome_estimation/sample_read_1.fastq /common/Tutorial/Genome_estimation/sample_read...2240 days ago
- ➜ trinityrnaseq-Trinity-v2.6.6 git:(master) ✗ ./Trinity --seqType fq --max_memory 250G...---------------- -- (Contig Clustering & de Bruijn Graph Construction) -- -----------...e/urbe/Tools/trinityrnaseq-Trinity-v2.6.6/Chrysalis/GraphF...
2121 days ago
Installing ggplot2 and its dependencies on Ubuntu !
jit@jit-HP-Pro-3335-MT:~/Downloads/MitoHunter/minidot/bin$ sudo R [sudo] password for jit: R version 3....rror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/graph.c -o utf8lite/src/graph....1544 days ago
Pack a perl program with their dependencies on Ubuntu !
#Follow steps to create your own executable ./web jit@jit-HP-Pro-3335-MT:~/Downloads...uenceTubeMapsdisplaysmultiplegenomicsequencestubemapgraphmap github.com - A Jav...pt module for the visualization of genomic sequence graphs...1505 days ago
Commands to install conda in Ubuntu !
...UPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN C...isualstudio.com/License. Cryptography Notice ===================...This distribution includes cryptographic software. The country in wh...2.2-py37_1 ... installing: cryptography-2.6.1-py37h1ba5d50_0 ... ins...1505 days ago
- (base) jit@jit-HP-Pro-3335-MT:~/Downloads/testDock$ docker build -t autocontampr . Sending build context to Docker daemon 9.024MB Step 1/16 : FROM ubuntu:14.04 ---...
1436 days ago
- (JitMetaENV) ➜ assembly conda install -c bioconda prokka Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen so...
1209 days ago
- (JitMetaENV) ➜ test_phase_assebly conda install -c bioconda bwise Collecting package metadata (current_repodata....taENV) ➜ test_phase_assebly bwise *** This is BWISE - High order De Bruijn graph...
984 days ago
Tadpole is 250x faster than SPADes assembler !
lege@jit-Lenovo-ideapad-320-15ISK:~/Downloads/MyTools/Vir$ tadpole.sh Written by Br...flags. dot= Write a contigs connectivity graph (partially implemented) dump...processcontigs=f Explore the contig connectivity graph....970 days ago
