biobakery/MetaPhlAn

Issues

• [BUG]:Mamba installation - transaction Error

  #224 opened 9 months ago by WUD2018
  1

• failed to download Chocophlan Database

  #223 opened 10 months ago by rishidash12
  1

• [BUG]Could not locate a Bowtie index corresponding to basename

  #222 opened 10 months ago by rwrwei
  1

• Actinomyces Viscosus

  #221 opened a year ago by lear-711
  1

• [BUG] Internet and permission issues when connecting to metaphlan online database through proxy server

  #220 opened a year ago by LMM716
  1

• FileNotFoundError: [Errno 2] No such file or directory: Database__SGB2GTDB.tsv'[BUG]

  #219 opened a year ago by dywang0323
  1

• Merge_metaphlan_table.py Error

  #218 opened a year ago by nelli-vardazaryan
  1

• Correspondence between SGBs and specific strain names

  #217 opened a year ago by fanqiedantang
  1

• NOT getting to run it

  #215 opened a year ago by sekhwal
  1

• [BUG] mpa_vJan21_CHOCOPhlAnSGB_202103 cannot used

  #214 opened a year ago by AlsoATraveler
  1

• [BUG] MetaPhlAn ignores database.

  #210 opened 2 years ago by maxvonhippel
  3

• [BUG]ValueError: Number of passed names did not match number of header fields in the file A clear and concise description of what the bug is.

  #213 opened a year ago by Damianyangyang
  1

• FileNotFoundError: [Errno 2] Metaphlan4_Data_SGB2GTDB.tsv

  #211 opened 2 years ago by JustinGibbons
  1

• Help with customising the database

  #209 opened 2 years ago by vinisalazar
  1

• empty output

  #208 opened 2 years ago by javad30
  1

• #Question

  #207 opened 2 years ago by JiaZhong28
  1

• nreads of bowtie2 file

  #205 opened 2 years ago by songdq
  3

• [Request] Tutorial on generating a custom database for MetaPhlAn 4 from scratch (not updating the existing database)

  #203 opened 2 years ago by jolespin
  5

• A strange result

  #204 opened 2 years ago by TKsh6
  1

• bowtie2-align exited with value 137

  #202 opened 2 years ago by SMetagenomics
  1

• How to get mpa_vOct22_CHOCOPhlAnSGB_202212.nwk for calculate_diversity.r?

  #201 opened 2 years ago by pangkun97
  1

• UnicodeDecodeError

  #200 opened 2 years ago by TKsh6
  1

• Solving environment failed

  #199 opened 2 years ago by sasakitomiyano
  1

• [BUG]

  #198 opened 2 years ago by kullrich
  1

• [BUG] MetaPhlAn 4.0.4 h5py/numpy version issue

  #197 opened 2 years ago by sjaenick
  1

• [BUG] bowtie database not found

  #196 opened 2 years ago by bernt-matthias
  1

• I keep getting "MD5 checksums do not correspond!...." error

  #195 opened 2 years ago by aclydlgc
  1

• -t rel_ab_w_read_stats output error

  #194 opened 2 years ago by MatteoBuffoni
  1

• Unable to use --install[BUG]

  #192 opened 2 years ago by wasade
  1

• [BUG] Running MetaPhlAn from SAM input fails to the type of the variable "n_metagenome_reads"

  #191 opened 2 years ago by alexhbnr
  1

• No MetaPhlAn BowTie2 database found

  #190 opened 2 years ago by figbeirns
  1

• [BUG] mpa_vJan21_CHOCOPhlAnSGB_202103_species.txt.bz2 is not complete

  #189 opened 2 years ago by aghozlane
  1

• [BUG] Metaphlan wiki typo

  #188 opened 2 years ago by hazmup
  1

• [BUG]

  #187 opened 2 years ago by Yvain-Desplat
  1

• How to Install metaphlan4?

  #186 opened 2 years ago by yhg926
  1

• customize database

  #168 opened 2 years ago by wjj666
  0

• List of taxa in Metaphlan4 database

  #185 opened 2 years ago by nick-youngblut
  1

• [BUG] metaphlan 4 beta KeyError: 't'

  #183 opened 2 years ago by ilyavs
  1

• Dropbox files no longer exist: cannot install database

  #182 opened 2 years ago by dkoslicki
  1

• MetaPhlAn3: IndexError: list index out of range

  #181 opened 2 years ago by y1025i
  1

• [BUG]cannot find hclust2.py

  #179 opened 3 years ago by DooYal
  1

• metaphlan2krona.py

  #177 opened 3 years ago by sarah872
  2

• classify to superkingdom/kingdom level?

  #176 opened 3 years ago by rjsorr
  1

• Metaphlan3 classification - comparison of samples and RiboDetector

  #175 opened 3 years ago by ARW-UBT
  2

• [BUG] - merge_metaphlan_tables.py not working in 3.0.14

  #173 opened 3 years ago by chadstachowicz
  2

• Unable to download from Dropbox [BUG]

  #174 opened 3 years ago by michoug
  1

• running metaphlan on rnaseq data

  #170 opened 3 years ago by marco91sol
  1

• Tranformation of the abundance table into relative abundance.

  #169 opened 3 years ago by JariKoot
  1

• Metaphlan2 could annotated 100% bacteria but metaphlan3 annotated 100% UNKNOWN

  #166 opened 3 years ago by zhaoxvwahaha
  4

• Customizing Chochophlan panproteome and Metaphlan marker gene databases with new taxa

  #167 opened 3 years ago by blostein
  1