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bgreat
|
public |
BGREAT2 is a read mapping tool for NGS sequencing data that align reads on a de Bruijn graph. Preliminary version described at https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1103-9 and used in Bcool a short read corrector (https://arxiv.org/abs/1711.03336)
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2024-12-14 |
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bioconductor-trajectorygeometry
|
public |
This Package Discovers Directionality in Time and Pseudo-times Series of Gene Expression Patterns
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2024-12-14 |
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10x_bamtofastq
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public |
Tool for converting 10x BAMs produced by Cell Ranger, Space Ranger, Cell Ranger ATAC, Cell Ranger DNA,
and Long Ranger back to FASTQ files that can be used as inputs to re-run analysis
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2024-12-14 |
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kmercamel
|
public |
KmerCamel🐫 - compressing k-mer sets using masked superstrings
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2024-12-14 |
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bioconductor-geva
|
public |
Gene Expression Variation Analysis (GEVA)
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2024-12-14 |
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bioconductor-pmm
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public |
Parallel Mixed Model
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2024-12-14 |
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bioconductor-anvilbilling
|
public |
Provide functions to retrieve and report on usage expenses in NHGRI AnVIL (anvilproject.org).
|
2024-12-14 |
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bioconductor-scfeaturefilter
|
public |
A correlation-based method for quality filtering of single-cell RNAseq data
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2024-12-14 |
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bioconductor-asafe
|
public |
Ancestry Specific Allele Frequency Estimation
|
2024-12-14 |
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bioconductor-rcollectl
|
public |
Help use collectl with R in Linux, to measure resource consumption in R processes
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2024-12-14 |
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bioconductor-mbttest
|
public |
Multiple Beta t-Tests
|
2024-12-14 |
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bioconductor-qvalue
|
public |
Q-value estimation for false discovery rate control
|
2024-12-14 |
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bioconductor-chicago
|
public |
CHiCAGO: Capture Hi-C Analysis of Genomic Organization
|
2024-12-14 |
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bioconductor-mapscape
|
public |
mapscape
|
2024-12-14 |
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bioconductor-targetscore
|
public |
TargetScore: Infer microRNA targets using microRNA-overexpression data and sequence information
|
2024-12-14 |
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bioconductor-seq.hotspot
|
public |
Targeted sequencing panel design based on mutation hotspots
|
2024-12-14 |
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bioconductor-informeasure
|
public |
R implementation of information measures
|
2024-12-14 |
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perl-json-parse
|
public |
Read JSON into a Perl variable
|
2024-12-14 |
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r-proteus-bartongroup
|
public |
R package for analysing proteomics data
|
2024-12-14 |
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perl-forks
|
public |
drop-in replacement for Perl threads using fork()
|
2024-12-14 |
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r-spring
|
public |
Semi-Parametric Rank-based approach for INference in Graphical model (SPRING)
|
2024-12-14 |
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cage
|
public |
Changepoint Analysis for Efficient Variant Calling
|
2024-12-14 |
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phylodm
|
public |
Efficient calculation of phylogenetic distance matrices.
|
2024-12-14 |
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python-hppy
|
public |
An intuitive HyPhy interface for Python
|
2024-12-14 |
|
gargammel-slim
|
public |
Tool for simulating ancient DNA datasets
|
2024-12-14 |
|
safesim
|
public |
SafeSeqS variant simulator
|
2024-12-14 |
|
vphaser2
|
public |
V-Phaser 2 is a tool to call variants in genetically heterogeneous populations from ultra-deep sequence data
|
2024-12-14 |
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sga
|
public |
SGA - String Graph Assembler. SGA is a de novo assembler for DNA sequence reads. It is based on Gene Myers string graph formulation of assembly and uses the FM-index/Burrows-Wheeler transform to efficiently find overlaps between sequence reads.
|
2024-12-14 |
|
telseq
|
public |
A software for calculating telomere length
|
2024-12-14 |
|
tatajuba
|
public |
Identification and classification of homopolymeric tracts from reads
|
2024-12-14 |
|
perl-namespace-autoclean
|
public |
Keep imports out of your namespace
|
2024-12-14 |
|
perl-string-approx
|
public |
No Summary
|
2024-12-14 |
|
libgab
|
public |
Several C++ subroutines useful for bioinformatics
|
2024-12-14 |
|
encode-blacklist
|
public |
The ENCODE Blacklist: Identification of Problematic Regions of the Genome
|
2024-12-14 |
|
fann
|
public |
No Summary
|
2024-12-14 |
|
fsa
|
public |
FSA is a probabilistic multiple sequence alignment algorithm which uses a "distance-based"
approach to aligning homologous protein, RNA or DNA sequences.
|
2024-12-14 |
|
sracat
|
public |
a command-line tool for extracting unordered read data from SRA files
|
2024-12-14 |
|
merfin
|
public |
Improved variant filtering and polishing via k-mer validation.
|
2024-12-14 |
|
r-acidcli
|
public |
Interative R command line interface toolkit for Acid Genomics packages.
|
2024-12-14 |
|
mammal
|
public |
Accelerated Estimation of Frequency Classes in Site-heterogeneous Profile Mixture Models
|
2024-12-14 |
|
winnowmap
|
public |
Winnowmap is a long-read mapping algorithm optimized for mapping ONT and PacBio reads to repetitive reference sequences.
|
2024-12-14 |
|
fastqpuri
|
public |
fastq quality assessment and filtering tool
|
2024-12-14 |
|
bioawk
|
public |
BWK awk modified for biological data
|
2024-12-14 |
|
symbiontscreener
|
public |
Symbiont-Screener is a reference-free approach to identifying high-confidence host's long reads from symbionts and contaminants and overcoming the low sequencing accuracy according to a trio-based screening model.
|
2024-12-14 |
|
ucsc-genepredhisto
|
public |
get data for generating histograms from a genePred file.
|
2024-12-14 |
|
rna-seqc
|
public |
Fast, efficient RNA-Seq metrics for quality control and process optimization.
|
2024-12-14 |
|
moni
|
public |
A Pangenomics Index for Finding MEMs
|
2024-12-14 |
|
modeltest-ng
|
public |
ModelTest-NG is a tool for selecting the best-fit model of evolution for DNA and protein alignments.
|
2024-12-14 |
|
genform
|
public |
Generation of molecular formulas by high-resolution MS and MS/MS data
|
2024-12-14 |
|
bicseq2-seg
|
public |
BICseq2-seg is for detecting CNVs based on the normalized data given by BICseq2-norm.
|
2024-12-14 |
