Results for "Ra"
Bio-Scripts
Generate simulated polyploid genome !
#Generate 3% divergence msbar -point 4 -count 16558 toy.fasta > toyheterozygous3perce...cat toy.fasta toymutated3percent.fasta > toyheterozygous3percent.fasta #generated 50X of Illumina paired-end...2063 days ago
Installing pb-assembly on Linux !
[jnarayan@hmem00 ~]$ module avail...libXrandr/1.5.0-foss-2016a BLACS/1....netCDF-Fortran/4.4.3-foss-2016a FFTW/3.3.3...R/3.1.0-goolf-1.6.10 Grace/5.1.24..._0 conda-forge traceback2: 1.4.0-py...2044 days ago
- (denovo_asm) [jnarayan@hmem00 ~]$ git clone https...directory. (denovo_asm) [jnarayan@hmem00 ~]$ git clone https...ository in /home/users/j/n/jnarayan/FALCON-examples/.git/ rem...398), done. (denovo_asm) [jnarayan@hmem00 ~]$ cd FALCON-examp...-> in dir '/home/users/j/n/jnarayan/FALCON-examples/.git/git-s...
2044 days ago
- ...ing-prototypes -Wmissing-declarations -DNUPACK_SAMPLE -I../.....ing-prototypes -Wmissing-declarations -DNUPACK_SAMPLE -I../.....esult] scanf( "%d", &nStrands); ^~~~~~~~~~~~~~~~~~...fscanf(seedFile, "%u\n", &rand_seed); ^~~~~~~~~~~~~~...
2036 days ago
- ...g.mk.in htslib-1.9/configure.ac htslib-1.9/cram/ htslib-1.9/cram/cram.h htslib-1.9/cram/cram...values.sam htslib-1.9/test/auxf#values_java.cram htslib-1.9/test/auxf.fa ht...master) ✗ make echo '/* Default config.h generated by Makefile */' > config.h...
2029 days ago
Installing Platypus on Ubuntu !
...echo '/* Default config.h generated by Makefile */' > config.h...read_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_deco...__ instead warning: cython/arrays.pyx:1:0: __getslice__, __se...liasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototyp...2029 days ago
- #! /usr/bin/Rscript ## Collect arguments args
2013 days ago
- #!/bin/bash Plot the coverage script chr=$1 start=$2 end=$3 samtools depth deduped_MA605.bam > deduped_MA605.coverage awk '$1 == $chr {print $0}' deduped_MA605.coverage > chr1_MA605.coverage #a...
2013 days ago
CollectGcBiasMetrics.jar will generate a GC bias plot for each contig
samtools index aln-pe.mapped.sorted.bam for i in $(samtools view -H aln-pe.mapped.sorted.bam | awk -F"\t" '/@SQ/{gsub("^SN:","",$2);print $2}' ); do samtools view...2013 days ago
Setting up falconUnzip conda environments for genome assembly !
...ceed ([y]/n)? y Preparing transaction: done Verifying transaction: done Executing tran...6 KB conda-forge cryptography-2.3.1 | py27hdff...0 conda-forge traceback2: 1.4.0-py...# # We make no warranty that any such issue will b...1999 days ago
