Topic: samtools Goto Github
Some thing interesting about samtools
Some thing interesting about samtools
samtools,Get sex info from BAM file
User: adrianodemarino
samtools,A nodejs-based service for requests for tabix-indexed genomic data
User: alexpreynolds
samtools,Collecting Genotypes from ENA and make their SNPs
User: amirhoseinsafari
samtools,Hilbert Mapper is a C++ implementation of Hilbert's space filling curve to represent read coverage on genomic sequences. Although it can be used to represent any unidimensional vector of positive numerical data.
User: antoineho
samtools,Fast, epiallele-aware methylation caller and reporter — an R/Bioconductor package
Organization: bbcg
Home Page: https://BBCG.github.io/epialleleR/articles/epialleleR.html
samtools,WebAssembly modules for genomics
Organization: biowasm
Home Page: https://biowasm.com
samtools,Command line utility written in NodeJS to decode SAM flags to explain what they mean.
User: cbp44
samtools,Take information about snps on short sequence reads and accurately place the snps in a reference genome
User: cnuge
samtools,Learning the Sequence Alignment/Map format
User: davetang
Home Page: https://davetang.github.io/learning_bam_file/
samtools,Here we are going to discuss variant calling on human datasets using GATK Best practices pipeline
User: digo4
samtools,Apply samtools addreplacerg to add a new read group and assign all reads to it in a BAM file
Organization: iarcbioinfo
samtools,Multi-sample somatic variant caller
Organization: iarcbioinfo
samtools,https://ioncram.saudigenomeproject.com/
Organization: ioncram
samtools,Metalnx Micro Services for iRODS
Organization: irods-contrib
samtools,Snakemake pipeline for Popoolation and Popoolation2
User: jlanga
samtools,snakemake files of the tuxedo v2 pipeline from Pertea et al 2016
User: jlanga
Home Page: https://github.com/jlanga/smsk_tuxedo2
samtools,A command line tool (in Kotlin/JVM) for intuitively visualizing BAM alignments. (Currently unmaintained)
User: jslfree080
samtools,useful bash one-liners and scripts
User: kpatel427
samtools,RNAseq pipeline for alternative splicing junctions
Organization: lbgc-cfb
samtools,Panlineal is capable of generating Vgs from multiple genome alignments in form of lineal pan-genome. Combining short reads data, it can also detect the the allelism conduced by PAVs combinations of vast samples in a species.
User: lipingfangs
samtools,Parses Samtools output and extracts flagstat results such as number of reads that are pass/fail that are properly aligned, etc.
User: lvn3668
samtools,Analysis pipeline for processing paired-end Illumina reads obtained after ancient mtDNA target enrichment capture.
User: mnievesc
samtools,A pipeline to investigate horizontal gene transfer from NGS data
Organization: nf-core
Home Page: https://nf-co.re/hgtseq
samtools,NGLess: NGS with less work
Organization: ngless-toolkit
Home Page: https://ngless.embl.de
samtools,sysadmin tasks made easier
Organization: nucleomics-vib
samtools,Pipeline of somatic variant analysis using Waldenstrom macroglobulinemia patient’s RNA-seq data, including tools like STAR, HTseq, VarScan in parallel computing in SGE clusters, Deseq2 and GSEA in R
User: nyuhuyang
samtools,The ChIP-Seq peak calling algorithm using convolution neural networks
User: odb9402
samtools,Installation and usage for various tools for cancer genomics
User: qingxiangguo
samtools,CREST-seq peak calling.
User: r3fang
samtools,VariantCaller is a wrapper for the 2022 gatk & bcftools best practices + phasing with WhatsHap.
User: rhettrautsaw
samtools,Tools to filter SAM/BAM files by percent identity and percent of matched sequence
User: robaina
samtools,Library-free horizontal transfer detection, with a focus on transposable element invasions
User: rpianezza
samtools,Genopo a.k.a. F5N - A nanopore sequencing analysis toolkit for Android smartphones https://nanoporetech.com
User: sanojpunchihewa
samtools,The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.
Organization: seqan
Home Page: https://www.seqan.de
samtools,Pipeline for gene candidate discovery based on mutagenesis. Featured in gene cloning research published in Nature (DOIs: 10.1038/s41467-020-14937-2, 10.1038/s41467-021-23738-0, 10.1038/s41477-021-00971-5), Molecular Plant (DOI: 10.1016/j.molp.2021.05.010) and New Phytologist (DOI: 10.1111/nph.17075).
User: tc-hewitt
samtools,
User: teepean
samtools,A pipeline to run mapping, mash screen and assembly methods for pATLAS.
User: tiagofilipe12
samtools,script to convert bam2cram and reverse using find and samtools
User: vidboda
samtools,Convert mpileup format to base count tsv table
User: y9c
samtools,fxtools: light-weight processing tool for FASTA/FASTQ/BAM format data
User: yangao07
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