|
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) |
|
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) |
|
cutepeaks
|
0.2.3-1 |
0 |
0.00
|
A simple viewer for Sanger sequencing files |
Stunts
|
2022-02-08 01:37 (UTC) |
|
libsequoia-git
|
r157.81b0e8f-1 |
0 |
0.00
|
A library for loop-based MIDI step sequencing for JACK applications |
SpotlightKid
|
2023-04-29 01:10 (UTC) |
|
samtools
|
1.20-1 |
31 |
0.87
|
tools for manipulating next-generation sequencing data |
r6eve
|
2024-04-15 22:56 (UTC) |
|
lighter
|
1.1.2-1 |
0 |
0.00
|
Fast and memory-efficient sequencing error corrector |
PumpkinCheshire
|
2021-07-24 08:21 (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) |
|
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-screencounter
|
1.4.0-1 |
0 |
0.00
|
Counting Reads in High-Throughput Sequencing Screens |
pekkarr
|
2024-05-02 20:05 (UTC) |
|
r-rnaseqcovarimpute
|
1.0.2-3 |
0 |
0.00
|
Impute Covariate Data in RNA Sequencing Studies |
pekkarr
|
2024-04-25 19:32 (UTC) |
|
r-lineagespot
|
1.8.0-1 |
0 |
0.00
|
Detection of SARS-CoV-2 lineages in wastewater samples using next-generation sequencing |
pekkarr
|
2024-05-03 05:16 (UTC) |
|
r-katdetectr
|
1.6.0-1 |
0 |
0.00
|
Detection, Characterization and Visualization of Kataegis in Sequencing Data |
pekkarr
|
2024-05-06 18:03 (UTC) |
|
r-genomicplot
|
1.2.0-1 |
0 |
0.00
|
Plot profiles of next generation sequencing data in genomic features |
pekkarr
|
2024-05-05 18:12 (UTC) |
|
r-dnafusion
|
1.6.0-1 |
0 |
0.00
|
Identification of gene fusions using paired-end sequencing |
pekkarr
|
2024-05-03 02:54 (UTC) |
|
r-cfdnakit
|
1.2.0-1 |
0 |
0.00
|
Fragmen-length analysis package from high-throughput sequencing of cell-free DNA (cfDNA) |
pekkarr
|
2024-05-02 21:16 (UTC) |
|
htscodecs
|
1.6.0-1 |
1 |
0.00
|
Custom compression for sequencing formats, e.g. CRAM |
mschu
|
2023-12-07 16:37 (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) |
|
htslib
|
1.20-1 |
19 |
0.00
|
A C library for high-throughput sequencing data formats |
meanjollies
|
2024-04-15 18:29 (UTC) |
|
preseq
|
3.2.0-3 |
0 |
0.00
|
A tool for predicting and estimating the complexity of a genomic sequencing library, equivalent to predicting and estimating the number of redundant reads from a given sequencing depth. |
malacology
|
2023-07-26 18:17 (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) |
|
freec
|
11.6-2 |
0 |
0.00
|
Copy number and genotype annotation in whole genome and whole exome sequencing data |
malacology
|
2022-04-17 18:01 (UTC) |
|
musket
|
1.1-2 |
1 |
0.00
|
a parallel short-read error corrector for Illumina sequencing |
kleintux
|
2022-01-22 20:15 (UTC) |
|
flexbar
|
3.5.0-1 |
1 |
0.00
|
flexible barcode and adapter removal for sequencing platforms |
kleintux
|
2021-09-17 10:33 (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) |
|
nanoqc
|
0.9.4-1 |
0 |
0.00
|
Create fastQC-like plots for Oxford Nanopore sequencing data |
kbipinkumar
|
2023-08-06 05:29 (UTC) |
|
nanoget
|
1.19.3-1 |
0 |
0.00
|
Functions to extract useful metrics from Oxford Nanopore sequencing reads and alignments |
kbipinkumar
|
2023-09-20 00:01 (UTC) |
|
flair
|
2.0.0-1 |
0 |
0.00
|
Tool for correction, isoform definition, and alternative splicing analysis of nanopore cDNA, native RNA, and PacBio sequencing reads |
kbipinkumar
|
2023-06-14 00:01 (UTC) |
|
cutadapt
|
4.8-1 |
0 |
0.00
|
Remove adapter sequences from high-throughput sequencing reads. doi:10.14806/ej.17.1.200 |
kbipinkumar
|
2024-04-12 18:21 (UTC) |
|
chopper
|
0.8.0-1 |
0 |
0.00
|
Rust implementation of NanoFilt+NanoLyse intended for long read sequencing |
kbipinkumar
|
2024-04-20 00:02 (UTC) |
|
alevin-fry
|
0.9.0-1 |
0 |
0.00
|
A suite of tools for the rapid, accurate and memory-frugal processing single-cell and single-nucleus sequencing data |
kbipinkumar
|
2024-03-09 00:03 (UTC) |
|
adapterremoval
|
2.3.3-2 |
0 |
0.00
|
Remove remnant adapter sequences from High-Throughput Sequencing (HTS) data and trim low quality bases from the 3 prime end |
kbipinkumar
|
2023-04-02 06:02 (UTC) |
|
expressionmatrix2-git
|
0.4-3 |
0 |
0.00
|
Software for exploration of gene expression data from single-cell RNA sequencing. |
iosonofabio
|
2018-03-01 18:25 (UTC) |
|
r-rhtslib
|
2.4.1-1 |
0 |
0.00
|
HTSlib high-throughput sequencing library as an R package |
greyltc
|
2024-04-08 14:35 (UTC) |
|
r-dada2
|
1.30.0-1 |
0 |
0.00
|
Accurate, high-resolution sample inference from amplicon sequencing data |
greyltc
|
2023-11-02 09:37 (UTC) |
|
python-htseq
|
0.11.3-1 |
0 |
0.00
|
library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments |
greyltc
|
2020-11-01 15:10 (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) |
|
cutepeaks-git
|
0.2.3-1 |
1 |
0.00
|
A simple viewer for Sanger sequencing files |
Direct-A
|
2021-08-23 03:37 (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) |
|
nanopolish-git
|
0.14.0.r10.g21c75db-1 |
0 |
0.00
|
Provide signal-level analysis of Oxford Nanopore sequencing data |
Chocobo1
|
2023-04-05 21:29 (UTC) |
|
nanopolish
|
0.14.0-1 |
0 |
0.00
|
Provide signal-level analysis of Oxford Nanopore sequencing data |
Chocobo1
|
2022-08-28 14:25 (UTC) |
|
htslib-git
|
1.17.r16.g93434e04-1 |
0 |
0.00
|
C library for high-throughput sequencing data formats |
Chocobo1
|
2023-04-05 21:17 (UTC) |
|
hisat2-git
|
2.2.1.r55.g5086938-1 |
0 |
0.00
|
A fast and sensitive alignment program for mapping sequencing reads |
Chocobo1
|
2023-04-10 19:08 (UTC) |
|
hisat2-bin
|
2.2.1-3 |
0 |
0.00
|
A fast and sensitive alignment program for mapping sequencing reads |
Chocobo1
|
2022-05-06 13:50 (UTC) |
|
canu-git
|
2.2.r89.g769108f4b-1 |
0 |
0.00
|
A fork of the Celera Assembler designed for high-noise single-molecule sequencing |
Chocobo1
|
2023-04-10 08:24 (UTC) |
|
canu-bin
|
2.2-2 |
0 |
0.00
|
A fork of the Celera Assembler designed for high-noise single-molecule sequencing |
Chocobo1
|
2022-05-06 13:47 (UTC) |
|
canu
|
2.2-1 |
0 |
0.00
|
A fork of the Celera Assembler designed for high-noise single-molecule sequencing |
Chocobo1
|
2021-08-27 10:41 (UTC) |
|
bowtie2-bin
|
2.5.3-1 |
0 |
0.00
|
Tool for aligning sequencing reads to long reference sequences |
Chocobo1
|
2024-01-17 03:55 (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) |