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Search results for perl pipeline
perl
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pipeline
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84 search results found
Edta
⭐
294
Extensive de-novo TE Annotator
Shovill
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104
⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads
Rnaseqdb
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83
Ni
⭐
81
Say "ni" to data of any size
Orthomcl Pipeline
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55
Automates running of OrthoMCL software from http://orthomcl.org/common/downloads/software/v2.0
Ensembl Hive
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50
EnsEMBL Hive - a system for creating and running pipelines on a distributed compute resource
Impact Pipeline
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47
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
Get_phylomarkers
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39
A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concatenation approaches
Mirna
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38
microRNA profiling pipeline
Gawn
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37
Genome Annotation Without Nightmares
Mip
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36
Mutation Identification Pipeline. Read the latest documentation:
Px
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36
A Linux tool that provides progress and status information for command pipelines.
Scripts
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33
Metagenomic pipeline and other general scripts used in the lab.
Mtbseq_source
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32
MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.
Pgcgap
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29
The Prokaryotic Genomics and Comparative Genomics Analysis Pipeline
Showspeed
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28
print I/O activity of process, files, or network.
Rnaseq
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28
RNASeq pipeline
Bitacora
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27
BITACORA: A Bioinformatics tool for gene family annotation
Perl For Bioinformatics
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26
An attempt to help anyone interested in using Perl for Bioinformatics
Dna Me Pipeline
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24
DCC/DAC methylation pipeline source
Gbs Snp Crop
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24
GBS SNP Calling Reference Optional Pipeline
Planttribes
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23
PlantTribes is a collection of automated gene family analysis pipelines for comparative plant genomics
Gatb Minia Pipeline
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22
GATB Minia assembly pipeline
Vip
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22
Unliner
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21
Untangle your unix pipeline one-liners
Integrative
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19
Software Pipeline for Integrative Genetic Association Analysis: Probabilistic Assessment of Enrichment and Colocalization
Toggle
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18
Toolbox for generic NGS analyses - A framework to quickly build pipelines and to perform large-scale NGS analysis
Shotmap
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17
A Shotgun Metagenome Annotation Pipeline
Cancerdiscover
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17
Open-source software pipeline for cancer classification from high-throughput data using machine learning.
Ci Perl Helpers
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16
Makes comprehensive testing of Perl projects in Azure Pipelines trivial
Pipedream
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16
PipeDream - open source neuroimaging pipelines
Circrna_finder
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14
Pipeline for finding circular RNAs from RNA-seq data, based on STAR. Used in (Westholm et al, Cell Reports, 2014).
Icshape
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14
icSHAPE pipeline
Ppspcp
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13
A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline
Pipeline For Isoseq
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13
A pipeline for isoseq
Bgi Full Length Rna Analysis Pipeline
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12
Full-Length RNA Analysis pipeline developted by BGI RD group.
Sars Cov 2_multi Pcr_v1.0
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12
SARS-CoV-2 analysis pipeline for multiplex-PCR MPS(Massive Parrallel Sequencing) data
Pangenomepipeline
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12
PanGenomePipeline
Markdent
⭐
12
An event-based Markdown parser toolkit
Mfannot
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12
MFannot is a program for the annotation of mitochondrial and plastid genomes
Scripts_for_gb
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12
The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".
Qbrc Neoantigen Pipeline
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11
QBRC Neoantigen calling pipeline with CSiN calculation embedded
Hyb
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11
hyb: a bioinformatics pipeline for the analysis of CLASH (crosslinking, ligation and sequencing of hybrids) data
Iap
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11
Illumina analysis pipeline
Wgddetector
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10
Amos
⭐
10
A clone of the official AMOS git repo on sourceforge: https://sourceforge.net/projects/amos/
Ngsperl
⭐
10
NGS perl modules
Irys Scaffolding
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10
scripts to parse IrysView output
Damidseq_pipeline
⭐
10
An automated pipeline for processing DamID sequencing datasets
Fgmp
⭐
9
Fungal Genome Mapping Pipeline
Conversationalagents
⭐
9
Articles, designs, and code for making conversational agents.
Phylostratigraphy
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9
Pipeline for Phylostratigraphy
Npg_seq_pipeline
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9
Processing and analysis of data coming from Illumina sequencing machines
Trna Read Mapping
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9
Fa Nf
⭐
9
Functional annotation pipeline for proteins from non-model organisms implemented in Nextflow
Somaticwrapper
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8
Detect somatic variants from tumor and normal WGS/WXS data
Orac Dr
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8
The ORAC-DR astronomy data reduction pipeline
Perl Utils
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8
Set of text- and file-oriented utilities for processing texts, files and piping
2brad M
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8
Bgee_pipeline
⭐
8
Source code of the Bgee pipeline used to build the Bgee database
Vr Runner
⭐
8
Runner pipelines
Innovation Impact Pipeline
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7
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
Chimeraminer
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7
ChimeraMiner: An Improved Chimeric Read Detection Pipeline and Its Application in Single Cell Sequencing.
Virusscan
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7
VirusScan Pipeline
Update_pipeline
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7
Update a pipelines metadata
Os Autoinst Distri Example
⭐
7
distribution template for openqa tests
Circos Pipeline
⭐
7
circos pipeline
Supertreebase
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7
Analysis of TreeBASE data through the NeXML API
Vargenius
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7
VarGenius is a software for variants discovery and annotation. It allows efficient management of folder data and jobs submission into a PBS cluster. All the variants will be inserted into a PostgreSQL database that can be used for downstream analyses. It is written with PERL, R and HTML languages and uses Picard, Samtools, BWA, GATK and Annovar!
Mcsc_decontamination
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7
Scripts and documentations on the MCSC decontamination method
Misplice
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6
Discover Mutation Induced Splice Sites
Mario
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6
Measurement of Allelic Ratio Informatics Operator (MARIO) pipeline
Circrna
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6
Nextflow pipeline to scan high throughput sequencing data for circRNAs, perform differential expression and generate circRNA-miRNA targets
Bcdatabaser
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6
A pipeline to create reference databases for arbitrary markers and taxonomic groups from NCBI data
Samba
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6
An HPC cluster-based pipeline for atlas creation, voxel- and label-based analysis (and more!)
Diya
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6
Repository for DIYA code
Cg Pipeline
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6
Genome assembly/prediction/annotation pipeline for the Linux command line
Oxford Plots
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6
eHive pipeline to build pairwise Oxford plots
Rubble
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5
A blast-based protein homology pipeline
Ensembl Database Loader
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5
A eHive Pipeline for loading Ensembl and Ensembl Genomes databases to a MySQL compatible server
Sss Test
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5
Selection on the Secondary Structure-test: a test that detects positive and negative selection from a set of orthologs, either small or long ncRNAs.
Ipsa Nf
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5
Integrative Pipeline for Splicing Analyses (IPSA) in Nextflow
Nf Repeatmasking
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5
Nextflow workflow for automatic repeat detection, classification and masking
Matafiler
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5
Metagenomic assembly, genome reconstruction and functional as well as taxonomic profiling
Genotyping
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5
Components of the WTSI genotype analysis pipeline.
Perl Powershell
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5
Clustcompare
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5
Pipeline to compare secondary metabolite biosynthetic gene clusters (BGCs)
Ngspipeline
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5
NGS pipeline
Deploymentpipeline
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5
deployment pipeline at AgilaSverige
Binning
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5
Code for statistical binning and related scripts
Netminer
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5
A pipeline for high-confidence RNA-seq gene co-expression network inference
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