Truth.reindex#
missionbio.demultiplex.dna.truth.Truth.reindex
- Truth.reindex(labels=None, index=None, columns=None, axis=None, method=None, copy=None, level=None, fill_value=nan, limit=None, tolerance=None) DataFrame#
Conform Series/DataFrame to new index with optional filling logic.
Places NA/NaN in locations having no value in the previous index. A new object is produced unless the new index is equivalent to the current one and
copy=False.- Parameters:
- keywords for axesarray-like, optional
New labels / index to conform to, should be specified using keywords. Preferably an Index object to avoid duplicating data.
- method{None, ‘backfill’/’bfill’, ‘pad’/’ffill’, ‘nearest’}
Method to use for filling holes in reindexed DataFrame. Please note: this is only applicable to DataFrames/Series with a monotonically increasing/decreasing index.
None (default): don’t fill gaps
pad / ffill: Propagate last valid observation forward to next valid.
backfill / bfill: Use next valid observation to fill gap.
nearest: Use nearest valid observations to fill gap.
- copybool, default True
Return a new object, even if the passed indexes are the same.
- levelint or name
Broadcast across a level, matching Index values on the passed MultiIndex level.
- fill_valuescalar, default np.NaN
Value to use for missing values. Defaults to NaN, but can be any “compatible” value.
- limitint, default None
Maximum number of consecutive elements to forward or backward fill.
- toleranceoptional
Maximum distance between original and new labels for inexact matches. The values of the index at the matching locations most satisfy the equation
abs(index[indexer] - target) <= tolerance.Tolerance may be a scalar value, which applies the same tolerance to all values, or list-like, which applies variable tolerance per element. List-like includes list, tuple, array, Series, and must be the same size as the index and its dtype must exactly match the index’s type.
- Returns:
- Series/DataFrame with changed index.
See also
DataFrame.set_indexSet row labels.
DataFrame.reset_indexRemove row labels or move them to new columns.
DataFrame.reindex_likeChange to same indices as other DataFrame.
Examples
DataFrame.reindexsupports two calling conventions(index=index_labels, columns=column_labels, ...)(labels, axis={'index', 'columns'}, ...)
We highly recommend using keyword arguments to clarify your intent.
Create a dataframe with some fictional data.
>>> index = ['Firefox', 'Chrome', 'Safari', 'IE10', 'Konqueror'] >>> df = pd.DataFrame({'http_status': [200, 200, 404, 404, 301], ... 'response_time': [0.04, 0.02, 0.07, 0.08, 1.0]}, ... index=index) >>> df http_status response_time Firefox 200 0.04 Chrome 200 0.02 Safari 404 0.07 IE10 404 0.08 Konqueror 301 1.00
Create a new index and reindex the dataframe. By default values in the new index that do not have corresponding records in the dataframe are assigned
NaN.>>> new_index = ['Safari', 'Iceweasel', 'Comodo Dragon', 'IE10', ... 'Chrome'] >>> df.reindex(new_index) http_status response_time Safari 404.0 0.07 Iceweasel NaN NaN Comodo Dragon NaN NaN IE10 404.0 0.08 Chrome 200.0 0.02
We can fill in the missing values by passing a value to the keyword
fill_value. Because the index is not monotonically increasing or decreasing, we cannot use arguments to the keywordmethodto fill theNaNvalues.>>> df.reindex(new_index, fill_value=0) http_status response_time Safari 404 0.07 Iceweasel 0 0.00 Comodo Dragon 0 0.00 IE10 404 0.08 Chrome 200 0.02
>>> df.reindex(new_index, fill_value='missing') http_status response_time Safari 404 0.07 Iceweasel missing missing Comodo Dragon missing missing IE10 404 0.08 Chrome 200 0.02
We can also reindex the columns.
>>> df.reindex(columns=['http_status', 'user_agent']) http_status user_agent Firefox 200 NaN Chrome 200 NaN Safari 404 NaN IE10 404 NaN Konqueror 301 NaN
Or we can use “axis-style” keyword arguments
>>> df.reindex(['http_status', 'user_agent'], axis="columns") http_status user_agent Firefox 200 NaN Chrome 200 NaN Safari 404 NaN IE10 404 NaN Konqueror 301 NaN
To further illustrate the filling functionality in
reindex, we will create a dataframe with a monotonically increasing index (for example, a sequence of dates).>>> date_index = pd.date_range('1/1/2010', periods=6, freq='D') >>> df2 = pd.DataFrame({"prices": [100, 101, np.nan, 100, 89, 88]}, ... index=date_index) >>> df2 prices 2010-01-01 100.0 2010-01-02 101.0 2010-01-03 NaN 2010-01-04 100.0 2010-01-05 89.0 2010-01-06 88.0
Suppose we decide to expand the dataframe to cover a wider date range.
>>> date_index2 = pd.date_range('12/29/2009', periods=10, freq='D') >>> df2.reindex(date_index2) prices 2009-12-29 NaN 2009-12-30 NaN 2009-12-31 NaN 2010-01-01 100.0 2010-01-02 101.0 2010-01-03 NaN 2010-01-04 100.0 2010-01-05 89.0 2010-01-06 88.0 2010-01-07 NaN
The index entries that did not have a value in the original data frame (for example, ‘2009-12-29’) are by default filled with
NaN. If desired, we can fill in the missing values using one of several options.For example, to back-propagate the last valid value to fill the
NaNvalues, passbfillas an argument to themethodkeyword.>>> df2.reindex(date_index2, method='bfill') prices 2009-12-29 100.0 2009-12-30 100.0 2009-12-31 100.0 2010-01-01 100.0 2010-01-02 101.0 2010-01-03 NaN 2010-01-04 100.0 2010-01-05 89.0 2010-01-06 88.0 2010-01-07 NaN
Please note that the
NaNvalue present in the original dataframe (at index value 2010-01-03) will not be filled by any of the value propagation schemes. This is because filling while reindexing does not look at dataframe values, but only compares the original and desired indexes. If you do want to fill in theNaNvalues present in the original dataframe, use thefillna()method.See the user guide for more.
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