jenniferlu717 Bracken issues

jenniferlu717 / Bracken

Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.

http://ccb.jhu.edu/software/bracken/index.shtml

GNU General Public License v3.0

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issues

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Bracken failed to execute after a period of installation and also few execution

#281 cypheroJ opened 1 week ago
0
Ability to do sub-species level abundance calling?

#280 jgrembi opened 1 week ago
0
KMER_LEN and READ_LEN for ONT build?

#279 rjsorr opened 2 weeks ago
0
bracken-build: line 231: syntax error: unexpected end of file error

#278 HUANGjiadai opened 1 month ago
2
new_est_reads between samples

#277 liuxiangping123 opened 2 months ago
1
overestimation of unexpected pathogens by bracken

#276 dmyrkana opened 2 months ago
0
Speed up kmer_distr especially for longer reads

#275 ch4rr0 closed 2 months ago
0
Different number of genus identified in genus and species level

#274 royparamita opened 2 months ago
1
bracken error : databaseeportsmers.kmer_distrib does not exist

#273 sm-sudo opened 2 months ago
2
Running Kraken2 + Bracken on multiple FASTQs per sample (each belonging to read group with its own read length)

#272 hermidalc closed 2 months ago
2
change of reads number

#271 suiyuano opened 2 months ago
1
combine_bracken_outputs

#270 skose82 closed 2 months ago
0
Using Bracken for metatranscriptomic analysis

#269 Somebodyatthdoor opened 3 months ago
0
Include --report-minimizer-data in Bracken output?

#268 DntBScrdDv opened 3 months ago
1
compile error ! shared library missing

#267 CongjianL opened 3 months ago
0
Reads directly assigned to taxon level above the level specified in Bracken kreport

#266 agatadziegiel opened 3 months ago
0
total reads in combine_bracken_outputs.py

#265 maAr517 opened 4 months ago
2
Bracken Taxonomic Level

#264 austenrowell opened 4 months ago
1
Is it possible to specify multiple databases for classification？

#263 smoothyly opened 4 months ago
1
Segmentation fault when trying to build krakenuniq database

#262 jalalsiddiqui opened 5 months ago
0
Install failed: chmod: cannot access \u2018bracken-build\u2019: No such file or directory

#261 YutongLi5276 opened 5 months ago
0
Bracken read length for ITS1 amplicons

#260 ARW-UBT opened 5 months ago
1
Question about calculations and intersample comparison

#259 alanxelena opened 5 months ago
1
seqid2taxid can't find seqid

#258 eric9n closed 5 months ago
0
Lower nr of reads at Class compared to Order level Bracken

#257 CETHuyghe opened 5 months ago
8
Update bracken-build

#256 ramirbjunior closed 6 months ago
1
Segmentation Fault - Core Dumped Issue (Step 3 - Converting Kmer Mappings into Read Classifications)

#255 ulin27 opened 6 months ago
0
bracken-build: line 229: syntax error: unexpected end of file error

#254 balaram26 closed 6 months ago
1
bracken 2.9 build error

#253 0russ4 opened 6 months ago
2
bracken-build - syntax error: unexpected end of file

#252 nicholascdove closed 6 months ago
3
bracken is not working with kraken2

#251 lyisrae1 opened 6 months ago
1
Question: Would it be possible to concatenate the braken read assignments from 2 different databases (1 bacterial database & 1 viral database)?

#250 the-eon-flux closed 4 months ago
2
Wrong docs for https://benlangmead.github.io/aws-indexes/k2 prebuilt DBs

#249 paulzierep opened 7 months ago
1
Should the kmer length of bracken always have the same length of the used kraken2 DB ?

#248 paulzierep opened 7 months ago
3
krakenuniq not working due fix-commit after release

#247 pustoshilov-d opened 7 months ago
1
Extract certain reads belonging to certain taxa.

#246 luzhang321 closed 7 months ago
1
Reduce memory overhead and exit early if not able to create database.…

#245 ch4rr0 closed 6 months ago
0
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#244 CETHuyghe closed 8 months ago
0
Strange Bracken results indicating Brassica Rapa reads in the Human RNASeq COVID Samples

#243 Rohit-Satyam opened 8 months ago
4
S1 level re-estimation doesn't seem to work for us

#242 swelbo opened 10 months ago
4
Convert bracken output to mpa file

#241 snehamurthy21 opened 10 months ago
0
Choosing read length for Oxford Nanopore long reads

#240 andreyeremin opened 11 months ago
1
threshold as percent/fraction rather than read number

#239 rjsorr opened 1 year ago
0
Error running Nat Protoc example data

#238 ellisjj closed 11 months ago
1
Counts at species level don't sum to root

#237 sconlan closed 1 year ago
1
low complexity plant samples are completely masked "xxxxx" and use up a lot of memory

#236 mclaugsf opened 1 year ago
0
bracken-build runs out of memory while kraken2 does not

#235 NikolasVellnow opened 1 year ago
1
what kmer size should be used for paired end read data?

#234 gregcaporaso closed 9 months ago
2
Reads being redistributed to lower abundance species over higher abundance species within the Bacillus genus

#233 nphage closed 11 months ago
3
bracken-build syntax error

#232 ythuangmyco opened 1 year ago
2