Software for pre-processing Illumina next-generation sequencing short read sequences. (Q33780363)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

title

Software for pre-processing Illumina next-generation sequencing short read sequences (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

0 references

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

4

Cathy H Wu

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

author name string

Sari S Khaleel

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Hongzhan Huang

series ordinal

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

publication date

3 May 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

Source Code for Biology and Medicine

21 March 2020

published in

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

volume

9

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

page(s)

8

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution 2.0 Generic

21 March 2020

copyright license

start time

3 May 2014

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

1 reference

April 2022 Public Data File from Crossref

describes a project that uses

MUMmer

object named as

MUMmer

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

exact match

https://scigraph.springernature.com/pub.10.1186/1751-0473-9-8

0 references

cites work

Trimmomatic: a flexible trimmer for Illumina sequence data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Qualimap: evaluating next-generation sequencing alignment data.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

NGS QC Toolkit: a toolkit for quality control of next generation sequencing data

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

GAGE: A critical evaluation of genome assemblies and assembly algorithms

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Assemblathon 1: a competitive assessment of de novo short read assembly methods

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

A biologist's guide to de novo genome assembly using next-generation sequence data: A test with fungal genomes.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Effects of short read quality and quantity on a de novo vertebrate transcriptome assembly

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Sequence-specific error profile of Illumina sequencers

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Genome structural variation discovery and genotyping

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Whole genome sequencing of enriched chloroplast DNA using the Illumina GAII platform

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Assembly algorithms for next-generation sequencing data

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

CANGS: a user-friendly utility for processing and analyzing 454 GS-FLX data in biodiversity studies

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

SeqTrim: a high-throughput pipeline for pre-processing any type of sequence read

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Sense from sequence reads: methods for alignment and assembly

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Fast mapping of short sequences with mismatches, insertions and deletions using index structures

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Evaluation of next generation sequencing platforms for population targeted sequencing studies

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

ABySS: a parallel assembler for short read sequence data

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Next-generation DNA sequencing

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Mapping and quantifying mammalian transcriptomes by RNA-Seq

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Velvet: algorithms for de novo short read assembly using de Bruijn graphs

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Genome assembly forensics: finding the elusive mis-assembly

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

SOAP: short oligonucleotide alignment program

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

High-resolution profiling of histone methylations in the human genome

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Use of simulated data sets to evaluate the fidelity of metagenomic processing methods

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Versatile and open software for comparing large genomes

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

An Eulerian path approach to DNA fragment assembly

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4064128

Btrim: a fast, lightweight adapter and quality trimming program for next-generation sequencing technologies.

4 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1751-0473-9-8

21 January 2018

Identifiers

DOI

10.1186/1751-0473-9-8

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

DBLP publication ID

journals/scfbm/ChenKHW14

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24955109%20AND%20SRC:MED&resulttype=core&format=json