Skip to content

GrosseLab/InstallProcedures

BranchesTags

Folders and files

NameName
Last commit message
Last commit date

Latest commit

 

History

111 Commits
.gitignore
.gitignore
 
 
R-3.2.1.sh
R-3.2.1.sh
 
 
R.sh
R.sh
 
 
README.md
README.md
 
 
bamUtil_1.0.13.sh
bamUtil_1.0.13.sh
 
 
bcftools_1.0.sh
bcftools_1.0.sh
 
 
bcftools_1.3.1.sh
bcftools_1.3.1.sh
 
 
bedtools_2.22.1.sh
bedtools_2.22.1.sh
 
 
bedtools_2.25.sh
bedtools_2.25.sh
 
 
bedtools_2.26.sh
bedtools_2.26.sh
 
 
blast+_2.2.30.sh
blast+_2.2.30.sh
 
 
blast+_2.2.31.sh
blast+_2.2.31.sh
 
 
blast+_2.4.0.sh
blast+_2.4.0.sh
 
 
blast.sh
blast.sh
 
 
blast_2.2.26.sh
blast_2.2.26.sh
 
 
bowtie_2.2.3.sh
bowtie_2.2.3.sh
 
 
bwa_0.7.10.sh
bwa_0.7.10.sh
 
 
bwa_0.7.15.sh
bwa_0.7.15.sh
 
 
cdhit_4.6.5.sh
cdhit_4.6.5.sh
 
 
corset.sh
corset.sh
 
 
fastqc_0.11.2.sh
fastqc_0.11.2.sh
 
 
fastqc_0.11.3.sh
fastqc_0.11.3.sh
 
 
fastqc_0.11.5.sh
fastqc_0.11.5.sh
 
 
featureCounts_1.4.6_p5.sh
featureCounts_1.4.6_p5.sh
 
 
gatk
gatk
 
 
hmmer_3.1b2.sh
hmmer_3.1b2.sh
 
 
liftover.sh
liftover.sh
 
 
oases.sh
oases.sh
 
 
picard
picard
 
 
picard.sh
picard.sh
 
 
picard_2.5.0.sh
picard_2.5.0.sh
 
 
picard_2.6.0.sh
picard_2.6.0.sh
 
 
picard_2.7.1.sh
picard_2.7.1.sh
 
 
profile
profile
 
 
python3-modules.sh
python3-modules.sh
 
 
python3.sh
python3.sh
 
 
samtools.sh
samtools.sh
 
 
samtools_1.2.sh
samtools_1.2.sh
 
 
samtools_1.3.1.sh
samtools_1.3.1.sh
 
 
segemehl.sh
segemehl.sh
 
 
segemehl_0.2.0.sh
segemehl_0.2.0.sh
 
 
seqtk.sh
seqtk.sh
 
 
snpEff.sh
snpEff.sh
 
 
star_2.5.2a.sh
star_2.5.2a.sh
 
 
subread_1.4.6.sh
subread_1.4.6.sh
 
 
subread_1.5.0-p3.sh
subread_1.5.0-p3.sh
 
 
subread_1.5.1.sh
subread_1.5.1.sh
 
 
trimmomatic
trimmomatic
 
 
trimmomatic.sh
trimmomatic.sh
 
 
trimmomatic_0.36.sh
trimmomatic_0.36.sh
 
 
trinity.sh
trinity.sh
 
 
vcftools_0.1.13.sh
vcftools_0.1.13.sh
 
 
vcftools_0.1.14.sh
vcftools_0.1.14.sh
 
 
velvet.sh
velvet.sh
 
 
vep.sh
vep.sh
 
 

Repository files navigation

InstallProcedures

Install procedures of common bioinformatics tools

Preprocessing

Adapter removal

  • scythe -

Trimmer

  • sickle -

Utilities

  • seqtk

Summary

  • FastQC - 0.11.2

String matcher

Read mapper

  • Segemehl - 0.1.9
  • BWA
  • Bowtie2

BLAST-Like

SNP

Caller

Utilities

  • BCFTools

Assembler

RNA

  • Trinity

DNA

Utilities

  • BEDTools
  • /etc/profile

About

Install procedures of common bioinformatics tools

Resources

Readme
Activity
Custom properties

Stars

1 star

Watchers

4 watching

Forks

0 forks
Report repository

Releases

No releases published

Packages

No packages published

Languages