146 packages found. Page 1 of 3.

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Name Version Votes Popularity? Description Maintainer Last Updated
samtools 1.20-1 31 0.87 tools for manipulating next-generation sequencing data r6eve 2024-04-15 22:56 (UTC)
htslib 1.20-1 19 0.00 A C library for high-throughput sequencing data formats meanjollies 2024-04-15 18:29 (UTC)
bowtie2 2.5.3-1 16 0.00 Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequence. vejnar 2024-03-16 15:40 (UTC)
picard-tools 3.1.1-1 8 0.00 set of tools for working with next generation sequencing data in the BAM format malacology 2023-11-15 00:03 (UTC)
hisat2 2.2.1-1 3 0.87 A fast and sensitive alignment program for mapping next-generation sequencing reads against genomes flying-sheep 2020-10-21 14:45 (UTC)
ngs 2.10.0-2 2 0.00 A new, domain-specific API for accessing reads, alignments and pileups produced from Next Generation Sequencing. orphan 2019-08-25 03:20 (UTC)
readknead 0.1.2-1 1 0.00 Knead your sequencing reads before baking: clips, demultiplexes, filters and trims reads vejnar 2022-11-22 20:53 (UTC)
musket 1.1-2 1 0.00 a parallel short-read error corrector for Illumina sequencing kleintux 2022-01-22 20:15 (UTC)
mosdepth 0.3.4-1 1 0.00 Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing meanjollies 2023-06-26 02:57 (UTC)
htscodecs 1.6.0-1 1 0.00 Custom compression for sequencing formats, e.g. CRAM mschu 2023-12-07 16:37 (UTC)
gatk-bin 4.5.0.0-1 1 0.00 Variant discovery in high-throughput bioinformatics sequencing data 46620 2023-12-14 18:57 (UTC)
flexbar 3.5.0-1 1 0.00 flexible barcode and adapter removal for sequencing platforms kleintux 2021-09-17 10:33 (UTC)
cutepeaks-git 0.2.3-1 1 0.00 A simple viewer for Sanger sequencing files Direct-A 2021-08-23 03:37 (UTC)
bcalm-git 2.2.0.r49.g890ea4a-1 1 0.00 constructs compacted de Bruijn graph from sequencing data Piezo 2019-12-01 14:50 (UTC)
sniffles 1.0.12-1 0 0.00 Structural variation caller using third generation sequencing orphan 2021-12-13 23:16 (UTC)
samtools-git 1.17.r8.gc75edb00-1 0 0.00 Tools for manipulating next-generation sequencing data Chocobo1 2023-04-13 08:33 (UTC)
rnalysis 3.11-1 0 0.00 Python-based software for analyzing RNA sequencing data. https://doi.org/10.1101/2022.11.25.517851 kbipinkumar 2024-01-05 18:04 (UTC)
r-tress 1.10.0-1 0 0.00 Toolbox for mRNA epigenetics sequencing analysis BioArchLinuxBot 2024-05-03 02:42 (UTC)
r-tradeseq 1.18.0-1 0 0.00 trajectory-based differential expression analysis for sequencing data BioArchLinuxBot 2024-05-03 08:30 (UTC)
r-titancna 1.42.0-1 0 0.00 Subclonal copy number and LOH prediction from whole genome sequencing of tumours BioArchLinuxBot 2024-05-03 08:09 (UTC)
r-tcseq 1.28.0-1 0 0.00 Time course sequencing data analysis BioArchLinuxBot 2024-05-03 07:46 (UTC)
r-subseq 1.34.0-1 0 0.00 Subsampling of high-throughput sequencing count data BioArchLinuxBot 2024-05-03 07:40 (UTC)
r-spsimseq 1.14.0-1 0 0.00 Semi-parametric simulation tool for bulk and single-cell RNA sequencing data BioArchLinuxBot 2024-05-03 08:47 (UTC)
r-splatter 1.28.0-1 0 0.00 Simple Simulation of Single-cell RNA Sequencing Data BioArchLinuxBot 2024-05-03 07:48 (UTC)
r-somnibus 1.12.0-1 0 0.00 Smooth modeling of bisulfite sequencing BioArchLinuxBot 2024-05-03 05:31 (UTC)
r-slingshot 2.12.0-1 0 0.00 Tools for ordering single-cell sequencing BioArchLinuxBot 2024-05-03 00:14 (UTC)
r-seqsqc 1.26.0-1 0 0.00 A bioconductor package for sample quality check with next generation sequencing data BioArchLinuxBot 2024-05-02 20:42 (UTC)
r-seqsetvis 1.24.0-1 0 0.00 Set Based Visualizations for Next-Gen Sequencing Data BioArchLinuxBot 2024-05-03 01:06 (UTC)
r-seqcna.annot 1.38.0-2 0 0.00 Annotation for the copy number analysis of deep sequencing cancer data with seqCNA BioArchLinuxBot 2024-03-15 14:10 (UTC)
r-seqcna 1.48.0-1 0 0.00 Copy number analysis of high-throughput sequencing cancer data BioArchLinuxBot 2023-10-25 22:08 (UTC)
r-seqcat 1.26.0-1 0 0.00 High Throughput Sequencing Cell Authentication Toolkit BioArchLinuxBot 2024-05-03 04:49 (UTC)
r-seqbias 1.50.0-1 0 0.00 Estimation of per-position bias in high-throughput sequencing data BioArchLinuxBot 2023-10-26 02:57 (UTC)
r-seq2pathway 1.36.0-1 0 0.00 a novel tool for functional gene-set (or termed as pathway) analysis of next-generation sequencing data BioArchLinuxBot 2024-05-02 23:16 (UTC)
r-seq.hotspot 1.4.0-1 0 0.00 Targeted sequencing panel design based on mutation hotspots pekkarr 2024-05-02 04:48 (UTC)
r-segmentseq 2.38.0-1 0 0.00 Methods for identifying small RNA loci from high-throughput sequencing data BioArchLinuxBot 2024-05-03 01:26 (UTC)
r-sdams 1.24.0-1 0 0.00 Differential Abundant/Expression Analysis for Metabolomics, Proteomics and single-cell RNA sequencing Data BioArchLinuxBot 2024-05-02 19:09 (UTC)
r-scthi 1.16.0-1 0 0.00 Indentification of significantly activated ligand-receptor interactions across clusters of cells from single-cell RNA sequencing data BioArchLinuxBot 2024-05-01 19:49 (UTC)
r-scshapes 1.10.0-1 0 0.00 A Statistical Framework for Modeling and Identifying Differential Distributions in Single-cell RNA-sequencing Data BioArchLinuxBot 2024-05-01 19:50 (UTC)
r-screencounter 1.4.0-1 0 0.00 Counting Reads in High-Throughput Sequencing Screens pekkarr 2024-05-02 20:05 (UTC)
r-scope 1.16.0-1 0 0.00 A normalization and copy number estimation method for single-cell DNA sequencing BioArchLinuxBot 2024-05-03 03:23 (UTC)
r-scds 1.20.0-1 0 0.00 In-Silico Annotation of Doublets for Single Cell RNA Sequencing Data BioArchLinuxBot 2024-05-02 21:36 (UTC)
r-scclassifr 1.2.0-3 0 0.00 Pretrained learning models for cell type prediction on single cell RNA-sequencing data BioArchLinuxBot 2022-06-07 13:21 (UTC)
r-sccb2 1.14.0-1 0 0.00 CB2 improves power of cell detection in droplet-based single-cell RNA sequencing data BioArchLinuxBot 2024-05-03 01:56 (UTC)
r-scannotatr 1.10.0-1 0 0.00 Pretrained learning models for cell type prediction on single cell RNA-sequencing data BioArchLinuxBot 2024-05-02 23:57 (UTC)
r-saturn 1.12.0-1 0 0.00 Scalable Analysis of Differential Transcript Usage for Bulk and Single-Cell RNA-sequencing Applications BioArchLinuxBot 2024-05-02 19:39 (UTC)
r-sangerseqr 1.40.0-1 0 0.00 Tools for Sanger Sequencing Data in R BioArchLinuxBot 2024-05-03 18:09 (UTC)
r-rsubread 2.18.0-1 0 0.00 Mapping, quantification and variant analysis of sequencing data BioArchLinuxBot 2024-05-02 03:20 (UTC)
r-rqc 1.38.0-1 0 0.00 Quality Control Tool for High-Throughput Sequencing Data BioArchLinuxBot 2024-05-03 05:47 (UTC)
r-rnaseqcovarimpute 1.2.0-1 0 0.00 Impute Covariate Data in RNA Sequencing Studies pekkarr 2024-05-10 12:04 (UTC)
r-rnamodr 1.18.0-1 0 0.00 Detection of post-transcriptional modifications in high throughput sequencing data BioArchLinuxBot 2024-05-04 18:36 (UTC)

146 packages found. Page 1 of 3.

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